• Time-resolved single-cell transcriptomics defines immune trajectories in glioblastoma

    Authors: Kirschenbaum D., Xie K., Ingelfinger F., Katzenelenbogen Y., Abadie K., Look T., Sheban F., Phan T. S., Li B., Zwicky P., Yofe I., David E., Mazuz K., Hou J., Chen Y., Shaim H., Shanley M., Becker S., Qian J., Colonna M., Ginhoux F., Rezvani K., Theis F. J., Yosef N., Weiss T., Weiner A. & Amit I. (2024), Cell. 187, 1, p. 149-165.e23
  • Longitudinal hair cortisol in bipolar disorder and a mechanism based on HPA dynamics

    Authors: Milo T., Maimon L., Cohen B., Haran D., Segman D., Danon T., Bren A., Mayo A., Rappaport G. C., McInnis M. & Alon U. (2024), iScience. 27, 3, 109234
  • Aneuploidy Can Be an Evolutionary Diversion on the Path to Adaptation

    Authors: Kohanovski I., Pontz M., Zande P. V., Selmecki A., Dahan O., Pilpel Y., Yona A. H. & Ram Y. (2024), Molecular Biology and Evolution. 41, 3, msae052
  • Epithelial zonation along the mouse and human small intestine defines five discrete metabolic domains

    Authors: Zwick R. K., Kasparek P., Palikuqi B., Viragova S., Weichselbaum L., McGinnis C. S., McKinley K. L., Rathnayake A., Vaka D., Nguyen V., Trentesaux C., Reyes E., Gupta A. R., Gartner Z. J., Locksley R. M., Gardner J. M., Itzkovitz S., Boffelli D. & Klein O. D. (2024), Nature Cell Biology. 26, 2, p. 250-262
  • Competitive fungal commensalism mitigates candidiasis pathology

    Authors: Sekeresova Kralova J., Donic C., Dassa B., Livyatan I., Jansen P. M., Ben-Dor S., Fidel L., Trzebanski S., Narunsky-Haziza L., Asraf O., Brenner O., Dafni H., Jona G., Boura-Halfon S., Stettner N., Segal E., Brunke S., Pilpel Y., Straussman R., Zeevi D., Bacher P., Hube B., Shlezinger N. & Jung S. (2024), Journal of Experimental Medicine. 221, 5, e20231686
  • Genome-wide association studies and polygenic risk score phenome-wide association studies across complex phenotypes in the human phenotype project

    Authors: Levine Z., Kalka I., Kolobkov D., Rossman H., Godneva A., Shilo S., Keshet A., Weissglas-Volkov D., Shor T., Diament A., Talmor-Barkan Y., Aviv Y., Sharon T., Weinberger A. & Segal E. (2024), Med. 5, 1, p. 90-101.e4
  • Geroprotective interventions converge on gene expression programs of reduced inflammation and restored fatty acid metabolism

    Authors: Landsberger T., Amit I. & Alon U. (2024), GeroScience. 46, p. 1627-1639
  • Mutational biases favor complexity increases in protein interaction networks after gene duplication

    Authors: Cisneros A. F., Nielly-Thibault L., Mallik S., Levy E. D. & Landry C. R. (2024), Molecular Systems Biology.
  • A stable microtubule bundle formed through an orchestrated multistep process controls quiescence exit

    Authors: Laporte D., Massoni-Laporte A., Lefranc C., Dompierre J., Mauboules D., Nsamba E. T., Royou A., Gal L., Schuldiner M., Gupta M. L. & Sagot I. (2024), eLife. 12, RP89958
  • Complement(ing) the microbiome in infants through breastmilk

    Authors: Nobs S. P. & Elinav E. (2024), Cell Research.
  • Structural basis of Gabija anti-phage defence and viral immune evasion

    Authors: Antine S. P., Johnson A. G., Mooney S. E., Leavitt A., Mayer M. L., Yirmiya E., Amitai G., Sorek R. & Kranzusch P. J. (2024), Nature. 625, 7994, p. 360-365
  • A synthetic differentiation circuit in Escherichia coli for suppressing mutant takeover

    Authors: Glass D. S., Bren A., Vaisbourd E., Mayo A. & Alon U. (2024), Cell. 187, 4, p. 931-944.e12
  • Single-Molecule Fluorescent In Situ Hybridization (smFISH) for RNA Detection in Bacteria

    Authors: Ciolli Mattioli C. & Avraham R. (2024), Fluorescence In Situ Hybridization (FISH). Haimovich G. (eds.). p. 3-23
  • Depletion of Mettl3 in cholinergic neurons causes adult-onset neuromuscular degeneration

    Authors: Dermentzaki G., Furlan M., Tanaka I., Leonardi T., Rinchetti P., Passos P. M., Bastos A., Ayala Y. M., Hanna J. H., Przedborski S., Bonanomi D., Pelizzola M. & Lotti F. (2024), Cell Reports. 43, 4, 113999
  • Endocrinology in the multi-omics era

    Authors: Shilo S. & Segal E. (2024), Nature Reviews Endocrinology. 20, p. 73-74
  • Quantification of beta cell carrying capacity in prediabetes

    Authors: Woller A., Tamir Y., Bar A., Mayo A., Rein M., Godneva A., Cohen N. M., Segal E., Toledano Y., Shilo S., Gonze D. & Alon U. (2024), BioRxiv.
  • An atlas of protein homo-oligomerization across domains of life

    Authors: Schweke H., Pacesa M., Levin T., Goverde C. A., Kumar P., Duhoo Y., Dornfeld L. J., Dubreuil B., Georgeon S., Ovchinnikov S., Woolfson D. N., Correia B. E., Dey S. & Levy E. D. (2024), Cell. 187, 4, p. 999-1010.e15
  • Dissecting the sequence and structural determinants guiding m6A deposition and evolution via inter- and intra-species hybrids

    Authors: Shachar R., Dierks D., Garcia-Campos M. A., Uzonyi A., Toth U., Rossmanith W. & Schwartz S. (2024), Genome Biology. 25, 48
  • What fraction of cellular DNA turnover becomes cfDNA?

    Authors: Sender R., Noor E., Milo R. & Dor Y. (2024), eLife. 12, RP89321
  • Ordered and disordered regions of the Origin Recognition Complex direct differential in vivo binding at distinct motif sequences

    Authors: Chappleboim M., Naveh-Tassa S., Carmi M., Levy Y. & Barkai N. (2024), Nucleic Acids Research. gkae249
  • Intrinsically disordered regions of the Msn2 transcription factor encode multiple functions using interwoven sequence grammars

    Authors: Mindel V., Brodsky S., Cohen A., Manadre W., Jonas F., Carmi M. & Barkai N. (2024), Nucleic Acids Research. 52, 5, p. 2260-2272
  • Directing RNA-modifying machineries towards endogenous RNAs: opportunities and challenges

    Authors: Witzenberger M. & Schwartz S. (2024), Trends in Genetics. 40, 4, p. 313-325
  • The links are still missing: Revisiting the role of RNA as a guide for chromatin-associated proteins

    Authors: Nielsen M. & Ulitksy I. (2024),
  • Bispecific dendritic-T cell engager potentiates anti-tumor immunity

    Authors: Shapir Itai Y., Barboy O., Salomon R., Bercovich A., Xie K., Winter E., Shami T., Porat Z., Erez N., Tanay A., Amit I. & Dahan R. (2024), Cell. 187, 2, p. 375-389.e18
  • Control of endothelial cell function and arteriogenesis by MEG3:EZH2 epigenetic regulation of integrin expression

    Authors: Dunn-Davies H., Dudnakova T., Nogara A., Rodor J., Thomas A. C., Parish E., Gautier P., Meynert A., Ulitsky I., Madeddu P., Caporali A., Baker A., Tollervey D. & Mitić T. (2024), Molecular Therapy Nucleic Acids. 35, 2, 102173
  • Phages overcome bacterial immunity via diverse anti-defence proteins

    Authors: Yirmiya E., Leavitt A., Lu A., Ragucci A. E., Avraham C., Osterman I., Garb J., Antine S. P., Mooney S. E., Hobbs S. J., Kranzusch P. J., Amitai G. & Sorek R. (2024), Nature. 625, 7994, p. 352-359
  • Proteins that carry dual targeting signals can act as tethers between peroxisomes and partner organelles

    Authors: Bittner E., Stehlik T., Lam J., Dimitrov L., Heimerl T., Schöck I., Harberding J., Dornes A., Heymons N., Bange G., Schuldiner M., Zalckvar E., Bölker M., Schekman R. & Freitag J. (2024), PLoS Biology. 22, 2, e3002508
  • Autotrophic growth of Escherichia coli is achieved by a small number of genetic changes

    Authors: Ben Nissan R., Milshtein E., Pahl V., de Pins B., Jona G., Levi D., Yung H., Nir N., Ezra D., Gleizer S., Link H., Noor E. & Milo R. (2024), eLife. 12, RP88793
  • Spatio-temporal coherence of circadian clocks and temporal control of differentiation in Anabaena filaments

    Authors: Arbel-Goren R., Dassa B., Zhitnitsky A., Valladares A., Herrero A., Flores E. & Stavans J. (2024), mSystems. 9, 1, e0070023
  • Continuous glucose monitoring and intrapersonal variability in fasting glucose

    Authors: Shilo S., Keshet A., Rossman H., Godneva A., Talmor-Barkan Y., Aviv Y. & Segal E. (2024), Nature Medicine.
  • Modeling T cell temporal response to cancer immunotherapy rationalizes development of combinatorial treatment protocols

    Authors: Barboy O., Bercovich A., Li H., Lubling Y., Yalin A., Shapir Itai Y., Abadie K., Zada M., David E., Shlomi S., Katzenelenbogen Y., Adhemar D., Gur C., Yofe I., Feferman T., Cohen M., Dahan R., Newell E., Lifshitz A., Tanay A. & Amit I. (2024), Nature Cancer.
  • Activation of Thoeris antiviral system via SIR2 effector filament assembly

    Authors: Tamulaitiene G., Sabonis D., Sasnauskas G., Ruksenaite A., Silanskas A., Avraham C., Ofir G., Sorek R., Zaremba M. & Siksnys V. (2024), Nature. 627, 8003, p. 431-436
  • Reply to Santini et al.: Total population reports are necessary for global biomass estimation of wild mammals

    Authors: Greenspoon L., Rosenberg Y., Meiri S., Roll U., Noor E. & Milo R. (2024),
  • The evolutionary safety of mutagenic drugs should be assessed before drug approval

    Authors: Lobinska G., Tretyachenko V., Dahan O., Nowak M. A. & Pilpel Y. (2024), PLoS Biology. 22, 3 March, e3002570
  • MemPrep, a new technology for isolating organellar membranes provides fingerprints of lipid bilayer stress

    Authors: Reinhard J., Starke L., Klose C., Haberkant P., Hammarén H., Stein F., Klein O., Berhorst C., Stumpf H., Sáenz J. P., Hub J., Schuldiner M. & Ernst R. (2024), EMBO Journal.
  • Melanoma and microbiota: Current understanding and future directions

    Authors: Routy B., Jackson T., Mählmann L., Baumgartner C. K., Blaser M., Byrd A., Corvaia N., Couts K., Davar D., Derosa L., Hang H. C., Hospers G., Isaksen M., Kroemer G., Malard F., McCoy K. D., Meisel M., Pal S., Ronai Z., Segal E., Sepich-Poore G. D., Shaikh F., Sweis R. F., Trinchieri G., van den Brink M., Weersma R. K., Whiteson K., Zhao L., McQuade J., Zarour H. & Zitvogel L. (2024), Cancer Cell. 42, 1, p. 16-34
  • Fine-tuning the gut ecosystem: the current landscape and outlook of artificial microbiome therapeutics

    Authors: Porcari S., Fusco W., Spivak I., Fiorani M., Gasbarrini A., Elinav E., Cammarota G. & Ianiro G. (2024), The Lancet Gastroenterology and Hepatology. 9, 5, p. 460-475
  • Regulation of lymphoid-myeloid lineage bias through regnase-1/3-mediated control of Nfkbiz

    Authors: Uehata T., Yamada S., Ori D., Vandenbon A., Giladi A., Jelinski A., Murakawa Y., Watanabe H., Takeuchi K., Toratani K., Mino T., Kiryu H., Standley D. M., Tsujimura T., Ikawa T., Kondoh G., Landthaler M., Kawamoto H., Rodewald H. R., Amit I., Yamamoto R., Miyazaki M. & Takeuchi O. (2024), Blood. 143, 3, p. 243-257
  • Regulation of major bacterial survival strategies by transcripts sequestration in a membraneless organelle

    Authors: Szoke T., Goldberger O., Albocher-Kedem N., Barsheshet M., Dezorella N., Nussbaum-Shochat A., Wiener R., Schuldiner M. & Amster-Choder O. (2023), Cell Reports. 42, 11, 113393
  • Bacterial SNPs in the human gut microbiome associate with host BMI

    Authors: Zahavi L., Lavon A., Reicher L., Shoer S., Godneva A., Leviatan S., Rein M., Weissbrod O., Weinberger A. & Segal E. (2023), Nature Medicine. 29, 11, p. 2785-2792
  • Microbiome-phage interactions in inflammatory bowel disease

    Authors: Federici S., Kviatcovsky D., Valdés-Mas R. & Elinav E. (2023), Clinical Microbiology and Infection. 29, 6, p. 682-688
  • Robust differentiation in a synthetic stem-cell circuit

    Authors: Glass D. S., Bren A., Vaisbourd E., Mayo A. & Alon U. (2023), BioRxiv.
  • A toolbox for systematic discovery of stable and transient protein interactors in baker's yeast

    Authors: Fenech E. J., Cohen N., Kupervaser M., Gazi Z. & Schuldiner M. (2023), Molecular Systems Biology. 19, 2, e11084
  • Pregnancy and postpartum dynamics revealed by an atlas of millions of lab tests

    Authors: Bar A., Mendelsohn-Cohen N., Kohanim Y. K., Mayo A., Toledano Y. & Alon U. (2023), BioRxiv.
  • TET2 and TET3 loss disrupts small intestine differentiation and homeostasis

    Authors: Ansari I., Solé-Boldo L., Ridnik M., Gutekunst J., Gilliam O., Korshko M., Liwinski T., Jickeli B., Weinberg-Corem N., Shoshkes-Carmel M., Pikarsky E., Elinav E., Lyko F. & Bergman Y. (2023), Nature Communications. 14, 1, 4005
  • In Synergy: Optimizing CAR T Development and Personalizing Patient Care Using Single-Cell Technologies

    Authors: Barboy O., Katzenelenbogen Y., Shalita R. & Amit I. (2023), Cancer Discovery. 13, 7, p. 1546-1555
  • Neural plate progenitors give rise to both anterior and posterior pituitary cells

    Authors: Chen Q., Leshkowitz D., Li H., van Impel A., Schulte-Merker S., Amit I., Rizzoti K. & Levkowitz G. (2023), Developmental Cell. 58, 23, p. 2652-2665.e6
  • Diversifying nutritional sciences—dietary practices and gut bacteria in individuals of Latino and Hispanic ancestry

  • Polyclonal lymphoid expansion drives paraneoplastic autoimmunity in neuroblastoma

    Authors: Rosenberg M. I., Greenstein E., Buchkovich M., Peres A., Santoni-Rugiu E., Yang L., Mikl M., Vaksman Z., Gibbs D. L., Reshef D., Salovin A., Irwin M. S., Naranjo A., Ulitsky I., de Alarcon P. A., Matthay K. K., Weigman V., Yaari G., Panzer J. A., Friedman N. & Maris J. M. (2023), Cell Reports. 42, 8, 112879
  • A non-antibiotic-disrupted gut microbiome is associated with clinical responses to CD19-CAR-T cell cancer immunotherapy

    Authors: Stein-Thoeringer C. K., Saini N. Y., Zamir E., Blumenberg V., Schubert M. L., Mor U., Fante M. A., Schmidt S., Hayase E., Hayase T., Rohrbach R., Chang C. C., McDaniel L., Flores I., Gaiser R., Edinger M., Wolff D., Heidenreich M., Strati P., Nair R., Chihara D., Fayad L. E., Ahmed S., Iyer S. P., Steiner R. E., Jain P., Nastoupil L. J., Westin J., Arora R., Wang M. L., Turner J., Menges M., Hidalgo-Vargas M., Reid K., Dreger P., Schmitt A., Müller-Tidow C., Locke F. L., Davila M. L., Champlin R. E., Flowers C. R., Shpall E. J., Poeck H., Neelapu S. S., Schmitt M., Subklewe M., Jain M. D., Jenq R. R. & Elinav E. (2023), Nature Medicine. 29, 4, p. 906-916
  • Cryo-EM structure of the RADAR supramolecular anti-phage defense complex

    Authors: Duncan-Lowey B., Tal N., Johnson A. G., Rawson S., Mayer M. L., Doron S., Millman A., Melamed S., Fedorenko T., Kacen A., Brandis A., Mehlman T., Amitai G., Sorek R. & Kranzusch P. J. (2023), Cell. 186, 5, p. 987-998
  • Paired single-cell host profiling with multiplex-tagged bacterial mutants reveals intracellular virulence-immune networks

    Authors: Heyman O., Yehezkel D., Ciolli Mattioli C., Blumberger N., Rosenberg G., Solomon A., Hoffman D., Bossel Ben-Moshe N. & Avraham R. (2023), Proceedings of the National Academy of Sciences. 120, 28, e221881212
  • Biofilm formation on human immune cells is a multicellular predation strategy of Vibrio cholerae

    Authors: Vidakovic L., Mikhaleva S., Jeckel H., Nisnevich V., Strenger K., Neuhaus K., Raveendran K., Ben-Moshe N. B., Aznaourova M., Nosho K., Drescher A., Schmeck B., Schulte L. N., Persat A., Avraham R. & Drescher K. (2023), Cell. 186, 12, p. 2690-2704.e20
  • The yeast RNA methylation complex consists of conserved yet reconfigured components with m6A-dependent and independent roles

    Authors: Ensinck I., Maman A., Albihlal W. S., Lassandro M., Salzano G., Sideri T., Howell S. A., Calvani E., Patel H., Bushkin G., Ralser M., Snijders A. P., Skehel M., Casañal A., Schwartz S. & van Werven F. J. (2023), eLife. 12, RP87860
  • Single-cell biology: what does the future hold?

    Authors: Polychronidou M., Hou J., Babu M. M., Liberali P., Amit I., Deplancke B., Lahav G., Itzkovitz S., Mann M., Saez-Rodriguez J., Theis F. & Eils R. (2023), Molecular Systems Biology. 19, 7, e11799
  • A clinical evaluation of an ex vivo organ culture system to predict patient response to cancer therapy

    Authors: Golan S., Bar V., Salpeter S. J., Neev G., Creiderman G., Kedar D., Aharon S., Turovsky L., Zundelevich A., Shahar H., Shapira H., Mallel G., Stossel E., Gavert N., Straussman R., Dotan Z., Berger R., Stossel C., Golan T., Halperin S., Leibovici D., Breuer S., Rottenberg Y., Applebaum L., Hubert A., Nechushtan H., Peretz T., Zick A., Chertin B., Koulikov D., Sonnenblick A. & Rosenbaum E. (2023), Frontiers in Medicine. 10, 1221484
  • Silc1 long noncoding RNA is an immediate-early gene promoting efficient memory formation

    Authors: Ben-Tov Perry R., Tsoory M., Tolmasov M. & Ulitsky I. (2023), Cell Reports. 42, 10, 113168
  • The molecular grammar of protein disorder guiding genome-binding locations

    Authors: Jonas F., Carmi M., Krupkin B., Steinberger J., Brodsky S., Jana T. & Barkai N. (2023), Nucleic Acids Research. 51, 10, p. 4831-4844
  • A randomized clinical trial comparing low-fat with precision nutrition–based diets for weight loss: impact on glycemic variability and HbA1c

    Authors: Kharmats A. Y., Popp C., Hu L., Berube L., Curran M., Wang C., Pompeii M. L., Li H., Bergman M., St-Jules D. E., Segal E., Schoenthaler A., Williams N., Schmidt A. M., Barua S. & Sevick M. A. (2023), American Journal of Clinical Nutrition. 118, 2, p. 443-451
  • Dietary fibers & immunity-more than meets the eye

    Authors: Cohen Y. & Elinav E. (2023),
  • Bacterial lifestyle switch in response to algal metabolites

    Authors: Barak-Gavish N., Dassa B., Kuhlisch C., Nussbaum I., Brandis A., Rosenberg G., Avraham R. & Vardi A. (2023), eLife. 12, e84400
  • Cordial Miners: Fast and Efficient Consensus for Every Eventuality

    Authors: Keidar I., Naor O., Poupko O. & Shapiro E. (2023), 37th International Symposium on Distributed Computing, DISC 2023.
  • The total mass, number, and distribution of immune cells in the human body

    Authors: Sender R., Weiss Y., Navon Y., Milo I., Azulay N., Keren L., Fuchs S., Ben-Zvi D., Noor E. & Milo R. (2023), Proceedings of the National Academy of Sciences. 120, 44, e230851112
  • A conserved family of immune effectors cleaves cellular ATP upon viral infection

    Authors: Rousset F., Yirmiya E., Nesher S., Brandis A., Mehlman T., Itkin M., Malitsky S., Millman A., Melamed S. & Sorek R. (2023), Cell. 186, 17, p. 3619-3631.e13
  • Sex-dependent control of pheromones on social organization within groups of wild house mice

    Authors: Zilkha N., Chuartzman S. G., Sofer Y., Pen Y., Cum M., Mayo A., Alon U. & Kimchi T. (2023), Current Biology. 33, 8, p. 1407-1420.e4
  • Microbiota-dependent and -independent postnatal development of salivary immunity

    Authors: Zubeidat K., Jaber Y., Saba Y., Barel O., Naamneh R., Netanely Y., Horev Y., Eli-berchoer L., Shhadeh A., Yosef O., Arbib E., Betser-Cohen G., Nadler C., Shapiro H., Elinav E., Aframian D. J., Wilensky A. & Hovav A. (2023), Cell reports (Cambridge). 42, 1, 111981
  • The evolutionary success of regulated cell death in bacterial immunity

    Authors: Rousset F. & Sorek R. (2023), Current Opinion in Microbiology. 74, 102312
  • Autoimmune thyroid diseases as a cost of physiological autoimmune surveillance

    Authors: Milo T., Kohanim Y. K., Toledano Y. & Alon U. (2023), Trends in Immunology. 44, 5, p. 365-371
  • Inflammatory signals from fatty bone marrow support DNMT3A driven clonal hematopoiesis

    Authors: Zioni N., Bercovich A. A., Chapal-Ilani N., Bacharach T., Rappoport N., Solomon A., Avraham R., Kopitman E., Porat Z., Sacma M., Hartmut G., Scheller M., Muller-Tidow C., Lipka D., Shlush E., Minden M., Kaushansky N. & Shlush L. I. (2023), Nature Communications. 14, 1, 2070
  • Grassroots Social Networking: Serverless, Permissionless Protocols for Twitter/LinkedIn/WhatsApp

  • Rules for body fat interventions based on an operating point mechanism

    Authors: Bar A., Karin O., Mayo A., Ben-Zvi D. & Alon U. (2023), iScience. 26, 2, 106047
  • Sec61 channel subunit Sbh1/Sec61β promotes ER translocation of proteins with suboptimal targeting sequences and is fine-tuned by phosphorylation

    Authors: Barbieri G., Simon J., Lupusella C. R., Pereira F., Elia F., Meyer H., Schuldiner M., Hanes S. D., Nguyen D., Helms V. & Römisch K. (2023), The journal of Biological chemistry. 299, 3, 102895
  • Complementary strategies for directing in vivo transcription factor binding through DNA binding domains and intrinsically disordered regions

    Authors: Kumar D. K., Jonas F., Jana T., Brodsky S., Carmi M. & Barkai N. (2023), Molecular Cell. 83, 9, p. 1462-1473.e5
  • Large-Scale Immuno-Peptidome Analysis Reveals Recurrent Post-Translational Splicing of Cancer and Immune-Associated Genes

    Authors: Levy R., Alter Regev T., Paes W., Gumpert N., Cohen Shvefel S., Bartok O., Dayan-Rubinov M., Alon M., Shmueli M., Levin Y., Merbl Y., Ternette N. & Samuels Y. (2023), Molecular & Cellular Proteomics. 22, 4, 100519
  • Impact of caloric restriction on the gut microbiota

    Authors: Kern L., Kviatcovsky D., He Y. & Elinav E. (2023), Current Opinion in Microbiology. 73, 102287
  • Discriminating physiological from non-physiological interfaces in structures of protein complexes: A community-wide study

    Authors: Schweke H., Xu Q., Tauriello G., Pantolini L., Schwede T., Cazals F., Lhéritier A., Fernandez-Recio J., Rodríguez-Lumbreras L. A., Schueler-Furman O., Varga J. K., Jiménez-García B., Réau M. F., Bonvin A. M., Savojardo C., Martelli P. L., Casadio R., Tubiana J., Wolfson H. J., Oliva R., Barradas-Bautista D., Ricciardelli T., Cavallo L., Venclovas Č., Olechnovič K., Guerois R., Andreani J., Martin J., Wang X., Terashi G., Sarkar D., Christoffer C., Aderinwale T., Verburgt J., Kihara D., Marchand A., Correia B. E., Duan R., Qiu L., Xu X., Zhang S., Zou X., Dey S., Dunbrack R. L., Levy E. D. & Wodak S. J. (2023), Proteomics. 23, 17, 2200323
  • The global human day

    Authors: Fajzel W., Galbraith E. D., Barrington-Leigh C., Charmes J., Frie E., Hatton I., Le Mézo P., Milo R., Minor K., Wan X., Xia V. & Xu S. (2023), Proceedings of the National Academy of Sciences of the United States of America. 120, 25, e221956412
  • The cellular states and fates of shed intestinal cells

    Authors: Bahar Halpern K., Korem Kohanim Y., Biram A., Harnik Y., Egozi A., Yakubovsky O., Shulman Z. & Itzkovitz S. (2023), Nature metabolism. 5, 11, p. 1858-1869
  • Utilization of the microbiome in personalized medicine

    Authors: Ratiner K., Ciocan D., Abdeen S. K. & Elinav E. (2023), Nature Reviews Microbiology.
  • Exclusion of m6A from splice-site proximal regions by the exon junction complex dictates m6A topologies and mRNA stability

    Authors: Uzonyi A., Dierks D., Nir R., Kwon O. S., Toth U., Barbosa I., Burel C., Brandis A., Rossmanith W., Le Hir H., Slobodin B. & Schwartz S. (2023), Molecular Cell. 83, 2
  • Intestinal B cells license metabolic T-cell activation in NASH microbiota/antigen-independently and contribute to fibrosis by IgA-FcR signalling

    Authors: Kotsiliti E., Leone V., Schuehle S., Govaere O., Li H., Wolf M. J., Horvatic H., Bierwirth S., Hundertmark J., Inverso D., Zizmare L., Sarusi-Portuguez A., Gupta R., O'Connor T., Giannou A. D., Shiri A. M., Schlesinger Y., Beccaria M. G., Rennert C., Pfister D., Öllinger R., Gadjalova I., Ramadori P., Rahbari M., Rahbari N., Healy M. E., Fernández-Vaquero M., Yahoo N., Janzen J., Singh I., Fan C., Liu X., Rau M., Feuchtenberger M., Schwaneck E., Wallace S. J., Cockell S., Wilson-Kanamori J., Ramachandran P., Kho C., Kendall T. J., Leblond A. L., Keppler S. J., Bielecki P., Steiger K., Hofmann M., Rippe K., Zitzelsberger H., Weber A., Malek N., Luedde T., Vucur M., Augustin H. G., Flavell R., Parnas O., Rad R., Pabst O., Henderson N. C., Huber S., Macpherson A., Knolle P., Claassen M., Geier A., Trautwein C., Unger K., Elinav E., Waisman A., Abdullah Z., Haller D., Tacke F., Anstee Q. M. & Heikenwalder M. (2023), Journal of Hepatology. 79, 2, p. 296-313
  • Mesoscale molecular assembly is favored by the active, crowded cytoplasm

    Authors: Shu T., Mitra G., Alberts J., Viana M. P., Levy E. D., Hocky G. M. & Holt L. J. (2023), BioRxiv.
  • Engineering bacteria to modulate host metabolism

    Authors: Ciocan D. & Elinav E. (2023), Acta Physiologica. 238, 3, e14001
  • Stochastic Turing patterns of trichomes in Arabidopsis leaves

    Authors: Di Patti F., Chirino Y. U., Arbel-Gore R., Sharon T., Castillo A., Alvarez-Buyll E., Fanelli D. & Stavans J. (2023), Proceedings of the National Academy of Sciences of the United States of America. 120, 42, e230961612
  • Proportional ranking in primary elections: A case study

    Authors: Rosenfeld A., Shapiro E. & Talmon N. (2023), Party Politics. 29, 2, p. 335-346
  • Ex vivo intestinal permeability assay (X-IPA) for tracking barrier function dynamics

    Authors: Bootz-Maoz H., Simon A., Del Mare-Roumani S., Bennet Y., Toister E., Romano H., Zheng D., Amidror S., Elinav E. & Yissachar N. (2023), npj Biofilms and Microbiomes. 9, 1, 44
  • Long non-coding RNAs: definitions, functions, challenges and recommendations

    Authors: Mattick J. S., Amaral P. P., Carninci P., Carpenter S., Chang H. Y., Chen L., Chen R., Dean C., Dinger M. E., Fitzgerald K. A., Gingeras T. R., Guttman M., Hirose T., Huarte M., Johnson R., Kanduri C., Kapranov P., Lawrence J. B., Lee J. T., Mendell J. T., Mercer T. R., Moore K. J., Nakagawa S., Rinn J. L., Spector D. L., Ulitsky I., Wan Y., Wilusz J. E. & Wu M. (2023), Nature Reviews Molecular Cell Biology. 24, p. 430-447
  • An immune cell atlas reveals the dynamics of human macrophage specification during prenatal development

    Authors: Wang Z., Wu Z., Wang H., Feng R., Wang G., Li M., Wang S. Y., Chen X., Su Y., Wang J., Zhang W., Bao Y., Lan Z., Song Z., Wang Y., Luo X., Zhao L., Hou A., Tian S., Gao H., Miao W., Liu Y., Wang H., Yin C., Ji Z. L., Feng M., Liu H., Diao L., Amit I., Chen Y., Zeng Y., Ginhoux F., Wu X., Zhu Y. & Li H. (2023), Cell. 186, 20, p. 4454-4471.e19
  • Complete human day 14 post-implantation embryo models from naive ES cells

    Authors: Oldak B., Wildschutz E., Bondarenko V., Comar M., Zhao C., Aguilera-Castrejon A., Tarazi S., Viukov S., Pham T. X. A., Ashouokhi S., Lokshtanov D., Roncato F., Ariel E., Rose M., Livnat N., Shani T., Joubran C., Cohen R., Addadi Y., Chemla M., Kedmi M., Keren-Shaul H., Pasque V., Petropoulos S., Lanner F., Novershtern N. & Hanna J. H. (2023), Nature. 622, 7983, p. 562-573
  • Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies

    Authors: Kennedy K. M., de Goffau M. C., Perez-Muñoz M. E., Arrieta M., Bäckhed F., Bork P., Braun T., Bushman F. D., Dore J., de Vos W. M., Earl A. M., Eisen J. A., Elovitz M. A., Ganal-Vonarburg S. C., Gänzle M. G., Garrett W. S., Hall L. J., Hornef M. W., Huttenhower C., Konnikova L., Lebeer S., Macpherson A. J., Massey R. C., McHardy A. C., Koren O., Lawley T. D., Ley R. E., O'Mahony L., O'Toole P. W., Pamer E. G., Parkhill J., Raes J., Rattei T., Salonen A., Segal E., Segata N., Shanahan F., Sloboda D. M., Smith G. C. S., Sokol H., Spector T. D., Surette M. G., Tannock G. W., Walker A. W., Yassour M. & Walter J. (2023), Nature. 613, 7945, p. 639-649
  • Rethinking human cytomegalovirus latency reservoir

    Authors: Schwartz M. & Stern-Ginossar N. (2023), Annals of the New York Academy of Sciences. 1524, 1, p. 30-36
  • Noncoding snoRNA host genes are a distinct subclass of long noncoding RNAs

    Authors: Monziani A. & Ulitsky I. (2023), Trends in Genetics. 39, 12, p. 908-923
  • Targeted delivery of tumor necrosis factor in combination with CCNU induces a T cell-dependent regression of glioblastoma

    Authors: Look T., Puca E., Bühler M., Kirschenbaum D., De Luca R., Stucchi R., Ravazza D., Di Nitto C., Roth P., Katzenelenbogen Y., Weiner A., Rindlisbacher L., Becher B., Amit I., Weller M., Neri D., Hemmerle T. & Weiss T. (2023), Science Translational Medicine. 15, 697, p. eadf2281
  • Complex regulation of Eomes levels mediated through distinct functional features of the Meteor long non-coding RNA locus

    Authors: Gil N., Perry R. B., Mukamel Z., Tuck A., Bühler M. & Ulitsky I. (2023), Cell Reports. 42, 6, 112569
  • The microbial genotoxin colibactin exacerbates mismatch repair mutations in colorectal tumors

    Authors: Dougherty M. W., Valdés-Mas R., Wernke K. M., Gharaibeh R. Z., Yang Y., Brant J. O., Riva A., Muehlbauer M., Elinav E., Puschhof J., Herzon S. B. & Jobin C. (2023), Neoplasia (United States). 43, 100918
  • CENTRE: a gradient boosting algorithm for Cell-type-specific ENhancer-Target pREdiction

    Authors: Rapakoulia T., Lopez De Vargas S. R., Omgba P. A., Laupert V., Ulitsky I. & Vingron M. (2023), Bioinformatics. 39, 11, btad687
  • Three phases of increasing complexity in estimating vaccine protection

    Authors: Amir O., Goldberg Y., Mandel M., Bar-On Y. M., Freedman L. S., Bodenheimer O., Huppert A. & Milo R. (2023),
  • EMSY stabilization in KEAP1-mutant lung cancer disrupts genome stability and type I interferon signaling

    Authors: Sheban D. & Merbl Y. (2023),
  • Phenotype switching of the mutation rate facilitates adaptive evolution

    Authors: Lobinska G., Pilpel Y. & Ram Y. (2023), Genetics (Austin). 225, 1, iyad111
  • Cerebrospinal fluid proteomics indicates immune dysregulation and neuronal dysfunction in antibody associated autoimmune encephalitis

    Authors: Räuber S., Schroeter C. B., Strippel C., Nelke C., Ruland T., Dik A., Golombeck K. S., Regner-Nelke L., Paunovic M., Esser D., Münch C., Rosenow F., van Duijn M., Henes A., Ruck T., Amit I., Leypoldt F., Titulaer M. J., Wiendl H., Meuth S. G., Meyer zu Hörste G. & Melzer N. (2023), Journal of Autoimmunity. 135, 102985
  • Impact of dietary interventions on pre-diabetic oral and gut microbiome, metabolites and cytokines

    Authors: Shoer S., Shilo S., Godneva A., Ben-Yacov O., Rein M., Wolf B. C., Lotan-Pompan M., Bar N., Weiss E. I., Houri-Haddad Y., Pilpel Y., Weinberger A. & Segal E. (2023), Nature Communications. 14, 5384
  • Phage therapy in noncommunicable diseases

    Authors: Kviatcovsky D., Valdés-Mas R., Federici S. & Elinav E. (2023), Science (New York, N.Y.). 382, 6668, p. 266-267
  • An autocrine signaling circuit in hepatic stellate cells underlies advanced fibrosis in nonalcoholic steatohepatitis

    Authors: Wang S., Li K., Pickholz E., Dobie R., Matchett K. P., Henderson N. C., Carrico C., Driver I., Borch Jensen M., Chen L., Petitjean M., Bhattacharya D., Fiel M. I., Liu X., Kisseleva T., Alon U., Adler M., Medzhitov R. & Friedman S. L. (2023), Science Translational Medicine. 15, 677, eadd3949
  • Spectrum of Response to Platinum and PARP Inhibitors in Germline BRCA–Associated Pancreatic Cancer in the Clinical and Preclinical Setting

    Authors: Stossel C., Raitses-Gurevich M., Atias D., Beller T., Glick Gorman Y., Halperin S., Peer E., Denroche R. E., Zhang A., Notta F., Wilson J. M., O'Kane G. M., Haimov Talmoud E., Amison N., Schvimer M., Salpeter S. J., Bar V., Zundelevich A., Tirosh I., Tal R., Dinstag G., Kinar Y., Eliezer Y., Ben-David U., Gavert N. S., Straussman R., Gallinger S. J., Berger R. & Golan T. (2023), Cancer Discovery. 13, 8, p. 1826-1843
  • Lung dendritic-cell metabolism underlies susceptibility to viral infection in diabetes

    Authors: Nobs S. P., Kolodziejczyk A. A., Adler L., Horesh N., Botscharnikow C., Herzog E., Mohapatra G., Hejndorf S., Hodgetts R. J., Spivak I., Schorr L., Fluhr L., Kviatcovsky D., Zacharia A., Njuki S., Barasch D., Stettner N., Dori-Bachash M., Harmelin A., Brandis A., Mehlman T., Erez A., He Y., Ferrini S., Puschhof J., Shapiro H., Kopf M., Moussaieff A., Abdeen S. K. & Elinav E. (2023), Nature. 624, 7992, p. 645-652
  • miR-4734 conditionally suppresses ER stress-associated proinflammatory responses

    Authors: Michael D., Feldmesser E., Gonen C., Furth N., Maman A., Heyman O., Argoetti A., Tofield A., Baichman-Kass A., Ben-Dov A., Benbenisti D., Hen N., Rotkopf R., Ganci F., Blandino G., Ulitsky I. & Oren M. (2023), FEBS Letters. 597, 9, p. 1233-1245
  • Upregulation of the ESCRT pathway and multivesicular bodies accelerates degradation of proteins associated with neurodegeneration

    Authors: Benyair R., Panapakkam Giridharan S. S., Rivero-Ríos P., Hasegawa J., Bristow E., Eskelinen E., Shmueli M. D., Fishbain-Yoskovitz V., Merbl Y., Sharkey L. M., Paulson H. L., Hanson P. I., Patnaik S., Al-Ramahi I., Botas J., Marugan J. & Weisman L. S. (2023), Autophagy Reports. 2, 1, 2166722
  • The Role of Artificial Intelligence in Deciphering Diet-Disease Relationships: Case Studies

    Authors: Cohen Y., Valdés-Mas R. & Elinav E. (2023), Annual Review of Nutrition. 43, p. 225-250
  • The defense island repertoire of the Escherichia coli pan-genome

    Authors: Hochhauser D., Millman A. & Sorek R. (2023), PLoS Genetics. 19, 4, e1010694
  • Nucleosome retention by histone chaperones and remodelers occludes pervasive DNA-protein binding

    Authors: Jonas F., Vidavski M., Benuck E., Barkai N. & Yaakov G. (2023), Nucleic Acids Research. 51, 16, p. 8496-8513
  • Gut microbiome modulates the effects of a personalised postprandial-targeting (PPT) diet on cardiometabolic markers: a diet intervention in pre-diabetes

    Authors: Ben-Yacov O., Godneva A., Rein M., Shilo S., Lotan-Pompan M., Weinberger A. & Segal E. (2023), Gut. 72, 8, p. 1486-1496
  • The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts

    Authors: Mayer S., Milo T., Isaacson A., Halperin C., Miyara S., Stein Y., Lior C., Pevsner-Fischer M., Tzahor E., Mayo A., Alon U. & Scherz-Shouval R. (2023), Nature Communications. 14, 1, 5810
  • CAR-T Cell Therapy and the Gut Microbiota

    Authors: Asokan S., Cullin N., Stein-Thoeringer C. K. & Elinav E. (2023), Cancers. 15, 3, 794
  • Tissue-specific macrophage immunometabolism

    Authors: Ben-Arosh H. & Avraham R. (2023), Current Opinion in Immunology. 84, 102369
  • Immunometabolism at the crossroads of obesity and cancer—a Keystone Symposia report

    Authors: Cable J., Rathmell J. C., Pearce E. L., Ho P. C., Haigis M. C., Mamedov M. R., Wu M. J., Kaech S. M., Lynch L., Febbraio M. A., Bapat S. P., Hong H. S., Zou W., Belkaid Y., Sullivan Z. A., Keller A., Wculek S. K., Green D. R., Postic C., Amit I., Benitah S. A., Jones R. G., Reina-Campos M., Torres S. V., Beyaz S., Brennan D., O'Neill L. A., Perry R. J. & Brenner D. (2023), Annals of the New York Academy of Sciences. 1523, 1, p. 38-50
  • Intracellular bacteria in cancer—prospects and debates

    Authors: Schorr L., Mathies M., Elinav E. & Puschhof J. (2023), npj Biofilms and Microbiomes. 9, 76
  • Single-nucleus multiomic mapping of m6A methylomes and transcriptomes in native populations of cells with sn-m6A-CT

    Authors: Hamashima K., Wong K. W., Sam T. W., Teo J. H. J., Taneja R., Le M. T., Li Q. J., Hanna J. H., Li H. & Loh Y. H. (2023), Molecular Cell. 83, 17, p. 3205-3216.e5
  • Compression of sickspan by interventions that steepen the survival curve

    Authors: Yang Y., Mayo A., Levy T., Jarosz D. & Alon U. (2023), BioRxiv.
  • Target search by an imported conjugative DNA element for a unique integration site along a bacterial chromosome during horizontal gene transfer

    Authors: Arbel-Goren R., McKeithen-Mead S. A., Voglmaier D., Afremov I., Teza G., Grossman A. D. & Stavans J. (2023), Nucleic Acids Research. 51, 7, p. 3116-3129
  • The geologic history of primary productivity

    Authors: Crockford P. W., Bar On Y. M., Ward L. M., Milo R. & Halevy I. (2023), Current Biology. 33, 21, p. 4741-4750.e5
  • Single cell Hi-C identifies plastic chromosome conformations underlying the gastrulation enhancer landscape

    Authors: Rappoport N., Chomsky E., Nagano T., Seibert C., Lubling Y., Baran Y., Lifshitz A., Leung W., Mukamel Z., Shamir R., Fraser P. & Tanay A. (2023), Nature Communications. 14, 1, 3844
  • LIS1 RNA-binding orchestrates the mechanosensitive properties of embryonic stem cells in AGO2-dependent and independent ways

    Authors: Kshirsagar A., Doroshev S. M., Gorelik A., Olender T., Sapir T., Tsuboi D., Rosenhek-Goldian I., Malitsky S., Itkin M., Argoetti A., Mandel-Gutfreund Y., Cohen S. R., Hanna J. H., Ulitsky I., Kaibuchi K. & Reiner O. (2023), Nature Communications. 14, 1, 3293
  • A systematic proximity ligation approach to studying protein-substrate specificity identifies the substrate spectrum of the Ssh1 translocon

    Authors: Cohen N., Aviram N. & Schuldiner M. (2023), EMBO Journal. 42, 11, e113385
  • Editorial: Microglia in neuroinflammation

    Authors: Ayata P., Amit I. & Cuda C. M. (2023), Frontiers in Immunology. 14, 1227095
  • GATA6-AS1 Regulates Intestinal Epithelial Mitochondrial Functions, and its Reduced Expression is Linked to Intestinal Inflammation and Less Favourable Disease Course in Ulcerative Colitis

    Authors: Sosnovski K. E., Braun T., Amir A., Moshel D., BenShoshan M., VanDussen K. L., Levhar N., Abbas-Egbariya H., Beider K., Ben-Yishay R., Asad Ali S., Moore S. R., Kugathasan S., Abramovich I., Saar E. G., Weiss B., Barshack I., Gottlieb E., Geiger T., Ben-Horin S., Ulitsky I., Hyams J. S., Denson L. A. & Haberman Y. (2023), Journal of Crohn's and Colitis. 17, 6, p. 960-971
  • Erratum: C/EBPβ-Dependent Epigenetic Memory Induces Trained Immunity in Hematopoietic Stem Cells (Cell Stem Cell (2020) 26(5) (657–674.e8), (S1934590920300175), (10.1016/j.stem.2020.01.017))

    Authors: de Laval B., Maurizio J., Kandalla P. K., Brisou G., Simonnet L., Huber C., Gimenez G., Matcovitch-Natan O., Reinhardt S., David E., Mildner A., Leutz A., Nadel B., Bordi C., Amit I., Sarrazin S. & Sieweke M. H. (2023),
  • Folylpolyglutamate synthetase mRNA G-quadruplexes regulate its cell protrusion localization and enhance a cancer cell invasive phenotype upon folate repletion

    Authors: Stark M., Levin M., Ulitsky I. & Assaraf Y. G. (2023), BMC Biology. 21, 1, 13
  • Time-aligned hourglass gastrulation models in rabbit and mouse

    Authors: Mayshar Y., Raz O., Cheng S., Ben-Yair R., Hadas R., Reines N., Mittnenzweig M., Ben-Kiki O., Lifshitz A., Tanay A. & Stelzer Y. (2023), Cell. 186, 12, p. 2610-2627.e18
  • Single-cell atlas of the human neonatal small intestine affected by necrotizing enterocolitis

    Authors: Egozi A., Olaloye O., Werner L., Silva T., McCourt B., Pierce R. W., An X., Wang F., Chen K., Pober J. S., Shouval D., Itzkovitz S. & Konnikova L. (2023), PLoS Biology. 21, 5, e3002124
  • Novel targeting assay uncovers targeting information within peroxisomal ABC transporter Pxa1

    Authors: Jansen R. L., van den Noort M., Krikken A. M., Bibi C., Böhm A., Schuldiner M., Zalckvar E. & van der Klei I. J. (2023), Biochimica et Biophysica Acta - Molecular Cell Research. 1870, 5, 119471
  • Untangling Cellular Host-Pathogen Encounters at Infection Bottlenecks

    Authors: Avraham R. (2023), Infection and Immunity. 91, 4, e0043822
  • The global biomass of wild mammals

    Authors: Greenspoon L., Krieger E., Sender R., Rosenberg Y., Bar-On Y. M., Moran U., Antman T., Meiri S., Roll U., Noor E. & Milo R. (2023), Proceedings of the National Academy of Sciences - PNAS. 120, 10, e220489212
  • Measuring vaccine protection when the population is mostly vaccinated

    Authors: Goldberg Y., Amir O., Mandel M., Freedman L., Bar-On Y. M., Bodenheimer O., Milo R. & Huppert A. (2023), Journal of Clinical Epidemiology. 163, p. 111-116
  • Nonnutritive sweeteners and glucose intolerance: Where do we go from here?

    Authors: Nobs S. P. & Elinav E. (2023), The Journal of Clinical Investigation. 133, 10, e171057
  • No democracy, no academia

    Authors: Albin E., Bressler S., Rolls A., Schwartz M. & Shapiro E. (2023), Science. 381, 6659, p. 715
  • Fungi and cancer

    Authors: Saftien A., Puschhof J. & Elinav E. (2023), Gut. 72, 7, p. 1410-1425
  • Wearable and digital devices to monitor and treat metabolic diseases

    Authors: Keshet A., Reicher L., Bar N. & Segal E. (2023), Nature metabolism. 5, 4, p. 563-571
  • Mucosal transcriptomics highlight lncRNAs implicated in ulcerative colitis, Crohn's disease, and celiac disease

    Authors: Braun T., Sosnovski K. E., Amir A., BenShoshan M., VanDussen K. L., Karns R., Levhar N., Abbas-Egbariya H., Hadar R., Efroni G., Castel D., Avivi C., Rosen M. J., Grifiths A. M., Walters T. D., Mack D. R., Boyle B. M., Ali S. A., Moore S. R., Schirmer M., Xavier R. J., Kugathasan S., Jegga A. G., Weiss B., Mayer C., Barshack I., Ben-Horin S., Ulitsky I., Beucher A., Ferrer J., Hyams J. S., Denson L. A. & Haberman Y. (2023), JCI Insight. 8, 14, e170181
  • Dissecting the cellular states and fates of shed mouse intestinal cells

    Authors: Itzkovitz S. & Halpern K. B. (2023), Nature metabolism.
  • Epithelial Nlrp10 inflammasome mediates protection against intestinal autoinflammation

    Authors: Zheng D., Mohapatra G., Kern L., He Y., Shmueli M. D., Valdés-Mas R., Kolodziejczyk A. A., Próchnicki T., Vasconcelos M. B., Schorr L., Hertel F., Lee Y. S., Rufino M. C., Ceddaha E., Shimshy S., Hodgetts R. J., Dori-Bachash M., Kleimeyer C., Goldenberg K., Heinemann M., Stettner N., Harmelin A., Shapiro H., Puschhof J., Chen M., Flavell R. A., Latz E., Merbl Y., Abdeen S. K. & Elinav E. (2023), Nature Immunology. 24, 4, p. 585-594
  • The architecture of binding cooperativity between densely bound transcription factors

    Authors: Lupo O., Kumar D. K., Livne R., Chappleboim M., Levy I. & Barkai N. (2023), Cell Systems. 14, 9, p. 732-745.e5
  • Phage-display immunoprecipitation sequencing of the antibody epitope repertoire in inflammatory bowel disease reveals distinct antibody signatures

    Authors: Bourgonje A. R., Andreu-Sánchez S., Vogl T., Hu S., Vich Vila A., Gacesa R., Leviatan S., Kurilshikov A., Klompus S., Kalka I. N., van Dullemen H. M., Weinberger A., Visschedijk M. C., Festen E. A., Faber K. N., Wijmenga C., Dijkstra G., Segal E., Fu J., Zhernakova A. & Weersma R. K. (2023), Immunity. 56, 6, p. 1393-1409.e6
  • Spatial and temporal mapping of breast cancer lung metastases identify TREM2 macrophages as regulators of the metastatic boundary

    Authors: Yofe I., Shami T., Cohen N., Landsberger T., Sheban F., Stoler-Barak L., Yalin A., Phan T. S., Li B., Monteran L., Scharff Y., Giladi A., Elbaz M., David E., Gurevich-Shapiro A., Gur C., Shulman Z., Erez N. & Amit I. (2023), Cancer Discovery. 13, 12, p. 2610-2631
  • The proteasome regulator PSME4 modulates proteasome activity and antigen diversity to abrogate antitumor immunity in NSCLC

    Authors: Javitt A., Shmueli M. D., Kramer M. P., Kolodziejczyk A. A., Cohen I. J., Radomir L., Sheban D., Kamer I., Litchfield K., Bab-Dinitz E., Zadok O., Neiens V., Ulman A., Wolf-Levy H., Eisenberg-Lerner A., Kacen A., Alon M., Rêgo A. T., Stacher-Priehse E., Lindner M., Koch I., Bar J., Swanton C., Samuels Y., Levin Y., da Fonseca P. C., Elinav E., Friedman N., Meiners S. & Merbl Y. (2023), Nature Cancer. 4, 5, p. 629-647
  • Small Intestinal Microbiota Oscillations, Host Effects and Regulation—A Zoom into Three Key Effector Molecules

    Authors: Ratiner K., Fachler-Sharp T. & Elinav E. (2023), Biology (Basel, Switzerland). 12, 1, 142
  • Massively parallel identification of mRNA localization elements in primary cortical neurons

    Authors: Mendonsa S., von Kügelgen N., Dantsuji S., Ron M., Breimann L., Baranovskii A., Lödige I., Kirchner M., Fischer M., Zerna N., Bujanic L., Mertins P., Ulitsky I. & Chekulaeva M. (2023), Nature Neuroscience. 26, p. 394-405
  • Dissecting the basis for differential substrate specificity of ADAR1 and ADAR2

    Authors: Zambrano-Mila M. S., Witzenberger M., Rosenwasser Z., Uzonyi A., Nir R., Ben-Aroya S., Levanon E. Y. & Schwartz S. (2023), Nature Communications. 14, 8212
  • Cellular and metabolic characteristics of pre-leukemic hematopoietic progenitors with GATA2 haploinsufficiency

    Authors: Rein A., Geron I., Kugler E., Fishman H., Gottlieb E., Abramovich I., Giladi A., Amit I., Mulet-Lazaro R., Delwel R., Gröschel S., Levin-Zaidman S., Dezorella N., Holdengreber V., Rao T. N., Yacobovich J., Steinberg-Shemer O., Huang Q., Tan Y., Chen S., Izraeli S. & Birger Y. (2023), Haematologica (Roma). 108, 9, p. 2316-2330
  • Unifying design principles of endocrine gland mass and its regulatory circuits

    Authors: Raz M., Milo T., Kohanim Y. K., Karin O., Tendler A., Bar A., Glass D. S., Mayo A. & Alon U. (2023), BioRxiv.
  • Spindle Position Checkpoint Kinase Kin4 Regulates Organelle Transport in Saccharomyces cerevisiae

    Authors: Ekal L., Alqahtani A. M., Schuldiner M., Zalckvar E., Hettema E. H. & Ayscough K. R. (2023), Biomolecules. 13, 7, 1098
  • CARD-like domains mediate anti-phage defense in bacterial gasdermin systems

    Authors: Wein T., Johnson A. G., Millman A., Lange K., Yirmiya E., Hadary R., Garb J., Steinruecke F., Hill A. B., Kranzusch P. J. & Sorek R. (2023), BioRxiv.
  • Fc glycoengineering of a PD-L1 antibody harnesses Fcγ receptors for increased antitumor efficacy

    Authors: Cohen Saban N., Yalin A., Landsberger T., Salomon R., Alva A., Feferman T., Amit I. & Dahan R. (2023), Science immunology. 8, 81, eadd8005
  • CC+: A Searchable Database of Validated Coiled Coils in PDB Structures and AlphaFold2 Models: A searchable database of validated coiled coils in PDB structures and AlphaFold2 models

    Authors: Kumar P., Petrenas R., Dawson W. M., Schweke H., Levy E. D. & Woolfson D. N. (2023), Protein Science. 32, 11, e4789
  • Improving 3D Medical Image Segmentation at Boundary Regions using Local Self-attention and Global Volume Mixing

    Authors: Abdul Kareem D. N., Fiaz M., Novershtern N., Hanna J. & Cholakkal H. (2023), IEEE Transactions on Artificial Intelligence. p. 1-12
  • Evolutionary safety of lethal mutagenesis driven by antiviral treatment

    Authors: Lobinska G., Pilpel Y. & Nowak M. A. (2023), PLoS Biology. 21, 8 August, e3002214
  • Excitable dynamics of flares and relapses in autoimmune diseases

    Authors: Lebel Y., Milo T., Bar A., Mayo A. & Alon U. (2023), iScience. 26, 11, 108084
  • A single-cell census of mouse limb development identifies complex spatiotemporal dynamics of skeleton formation

    Authors: Markman S., Zada M., David E., Giladi A., Amit I. & Zelzer E. (2023), Developmental Cell. 58, 7, p. 565-581.e4
  • Damage dynamics and the role of chance in the timing of E. coli cell death

    Authors: Yang Y., Karin O., Mayo A., Song X., Chen P., Santos A. L., Lindner A. B. & Alon U. (2023), Nature Communications. 14, 2209
  • m6A RNA modification regulates innate lymphoid cell responses in a lineage-specific manner

    Authors: Zhang Y., Zhang W., Zhao J., Ito T., Jin J., Aparicio A. O., Zhou J., Guichard V., Fang Y., Que J., Urban J. F., Hanna J. H., Ghosh S., Wu X., Ding L., Basu U. & Huang Y. (2023), Nature Immunology. 24, 8, p. 1256-1264
  • The global biomass and number of terrestrial arthropods

    Authors: Rosenberg Y., Bar-On Y. M., Fromm A., Ostikar M., Shoshany A., Giz O. & Milo R. (2023), Science advances. 9, 5, eabq4049
  • A single pseudouridine on rRNA regulates ribosome structure and function in the mammalian parasite Trypanosoma brucei

    Authors: Rajan K. S., Madmoni H., Bashan A., Taoka M., Aryal S., Nobe Y., Doniger T., Galili Kostin B., Blumberg A., Cohen-Chalamish S., Schwartz S., Rivalta A., Zimmerman E., Unger R., Isobe T., Yonath A. & Michaeli S. (2023), Nature Communications. 14, 1, 7462
  • Systems Medicine: Physiological Circuits and the Dynamics of Disease

    Authors: Alon U. (2023),
  • Protection against Omicron BA.1/BA.2 severe disease 0-7 months after BNT162b2 booster

    Authors: Amir O., Goldberg Y., Mandel M., Bar-On Y. M., Bodenheimer O., Freedman L., Alroy-Preis S., Ash N., Huppert A. & Milo R. (2023), Communications Biology. 6, 1, 315
  • Human microbiome research: Growing pains and future promises

    Authors: Puschhof J. & Elinav E. (2023), PLoS Biology. 21, 3, e3002053
  • Early Infiltration of Innate Immune Cells to the Liver Depletes HNF4α and Promotes Extrahepatic Carcinogenesis

    Authors: Goldman O., Adler L. N., Hajaj E., Croese T., Darzi N., Galai S., Tishler H., Ariav Y., Lavie D., Fellus-Alyagor L., Oren R., Kuznetsov Y., David E., Jaschek R., Stossel C., Singer O., Malitsky S., Barak R., Seger R., Erez N., Amit I., Tanay A., Saada A., Golan T., Rubinek T., Sang Lee J., Ben-Shachar S., Wolf I. & Erez A. (2023), Cancer Discovery. 13, 7, p. 1616-1635
  • Molecular characterization of human cytomegalovirus infection with single-cell transcriptomics

    Authors: Schwartz M., Shnayder M., Nachshon A., Arazi T., Kitsberg Y., Levi Samia R., Lavi M., Kuint R., Tsabari R. & Stern-Ginossar N. (2023), Nature Microbiology. 8, p. 455-468
  • Discovery of phage determinants that confer sensitivity to bacterial immune systems

    Authors: Stokar-Avihail A., Fedorenko T., Hör J., Garb J., Leavitt A., Millman A., Shulman G., Wojtania N., Melamed S., Amitai G. & Sorek R. (2023), Cell. 186, 9, p. 1863-1876
  • A microbial workout

    Authors: Kviatcovsky D. & Elinav E. (2023),
  • Phosphorylation of the receptor protein Pex5p modulates import of proteins into peroxisomes

    Authors: Fischer S., Buergi J., Gabay-Maskit S., Maier R., Mastalski T., Yifrach E., Obarska-Kosinska A., Rudowitz M., Erdmann R., Platta H. W., Wilmanns M., Schuldiner M., Zalckvar E., Oeljeklaus S., Drepper F. & Warscheid B. (2023), Biological Chemistry. 404, 2-3, p. 135-155
  • Histone exchange sensors reveal variant specific dynamics in mouse embryonic stem cells

    Authors: Dunjic M., Jonas F., Yaakov G., More R., Mayshar Y., Rais Y., Barkai N. & Stelzer Y. (2023), Nature Communications. 14, 3791
  • CGMap: Characterizing continuous glucose monitor data in thousands of non-diabetic individuals

    Authors: Keshet A., Shilo S., Godneva A., Talmor-Barkan Y., Aviv Y., Segal E. & Rossman H. (2023), Cell Metabolism. 35, 5, p. 758-769.e3
  • Cholesterol 24-hydroxylase at the choroid plexus contributes to brain immune homeostasis

    Authors: Tsitsou-Kampeli A., Suzzi S., Kenigsbuch M., Satomi A., Strobelt R., Singer O., Feldmesser E., Purnapatre M., Colaiuta S. P., David E., Cahalon L., Hahn O., Wyss-Coray T., Shaul Y., Amit I. & Schwartz M. (2023), Cell Reports Medicine. 4, 11, 101278
  • Single-cell multi-omics defines the cell-type-specific impact of splicing aberrations in human hematopoietic clonal outgrowths

    Authors: Cortés-López M., Chamely P., Hawkins A. G., Stanley R. F., Swett A. D., Ganesan S., Mouhieddine T. H., Dai X., Kluegel L., Chen C., Batta K., Furer N., Vedula R. S., Beaulaurier J., Drong A. W., Hickey S., Dusaj N., Mullokandov G., Stasiw A. M., Su J., Chaligné R., Juul S., Harrington E., Knowles D. A., Potenski C. J., Wiseman D. H., Tanay A., Shlush L., Lindsley R. C., Ghobrial I. M., Taylor J., Abdel-Wahab O., Gaiti F. & Landau D. A. (2023), Cell Stem Cell. 30, 9, p. 1262-1281.e8
  • Major depressive disorder and bistability in an HPA-CNS toggle switch

    Authors: Ron Mizrachi B., Tendler A., Karin O., Milo T., Haran D., Mayo A. & Alon U. (2023), PLoS Computational Biology. 19, 12, e1011645
  • The transcriptional and regulatory identity of erythropoietin producing cells

    Authors: Kragesteen B. K., Giladi A., David E., Halevi S., Geirsdóttir L., Lempke O. M., Li B., Bapst A. M., Xie K., Katzenelenbogen Y., Dahl S. L., Sheban F., Gurevich-Shapiro A., Zada M., Phan T. S., Avellino R., Wang S., Barboy O., Shlomi-Loubaton S., Winning S., Markwerth P. P., Dekalo S., Keren-Shaul H., Kedmi M., Sikora M., Fandrey J., Korneliussen T. S., Prchal J. T., Rosenzweig B., Yutkin V., Racimo F., Willerslev E., Gur C., Wenger R. H. & Amit I. (2023), Nature Medicine. 29, p. 1191-1200
  • Short-term dietary changes can result in mucosal and systemic immune depression

    Authors: Siracusa F., Schaltenberg N., Kumar Y., Lesker T. R., Steglich B., Liwinski T., Cortesi F., Frommann L., Diercks B. P., Bönisch F., Fischer A. W., Scognamiglio P., Pauly M. J., Casar C., Cohen Y., Pelczar P., Agalioti T., Delfs F., Worthmann A., Wahib R., Jagemann B., Mittrücker H. W., Kretz O., Guse A. H., Izbicki J. R., Lassen K. G., Strowig T., Schweizer M., Villablanca E. J., Elinav E., Huber S., Heeren J. & Gagliani N. (2023), Nature Immunology. 24, 9, p. 1473-1486
  • Head-to-head efficacy and safety of rivaroxaban, apixaban, and dabigatran in an observational nationwide targeted trial

    Authors: Talmor-Barkan Y., Yacovzada N., Rossman H., Witberg G., Kalka I., Kornowski R. & Segal E. (2023), European heart journal. Cardiovascular pharmacotherapy. 9, 1, p. 26-37
  • Systematic Approaches to Study Eclipsed Targeting of Proteins Uncover a New Family of Mitochondrial Proteins

    Authors: Mark M., Klein O., Zhang Y., Das K., Elbaz A., Hazan R. N., Lichtenstein M., Lehming N., Schuldiner M. & Pines O. (2023), Cells. 12, 11, 1550
  • Capturing the diversity of protein modifications on presented tumor antigens

    Authors: Javitt A. & Merbl Y. (2023), Nature biotechnology. 41, 2, p. 195-196
  • Tradeoffs in bacterial physiology determine the efficiency of antibiotic killing

    Authors: Bren A., Glass D. S., Kohanim Y. K., Mayo A. & Alon U. (2023), Proceedings of the National Academy of Sciences of the United States of America. 120, 51, e231265112
  • Comprehensive mapping of exon junction complex binding sites reveals universal EJC deposition in Drosophila

    Authors: Morillo L., Paternina T., Alasseur Q., Genovesio A., Schwartz S. & Le Hir H. (2023), BMC Biology. 21, 1, 246
  • Post-translational modifications reshape the antigenic landscape of the MHC I immunopeptidome in tumors

    Authors: Kacen A., Javitt A., Kramer M. P., Morgenstern D., Tsaban T., Shmueli M. D., Teo G. C., Leprevost F. d. V., Barnea E., Yu F., Admon A., Eisenbach L., Samuels Y., Schueler-Furman O., Levin Y., Nesvizhskii A. & Merbl Y. (2023), Nature Biotechnology. 41, 2, p. 239-251
  • The proteasome regulator PSME4 drives immune evasion and abrogates anti-tumor immunity in NSCLC

    Authors: Javitt A., Shmueli M., Kramer M., Kolodziejczyk A., Cohen I., Kamer I., Litchfield K., Bab-Dinitz E., Zadok O., Neiens V., Ulman A., Radomir L., Wolf-Levy H., Eisenberg-Lerner A., Kacen A., Alon M., Toste Rêgo A., Stacher-Priehse E., Lindner M., Koch I., Bar J., Swanton C., Samuels Y., Levin Y., da Fonseca P. C. A., Elinav E., Friedman N., Meiners S. & Merbl Y. (2023), bioArxiv.
  • Neighbor-specific gene expression revealed from physically interacting cells during mouse embryonic development

    Authors: Kim J., Rothová M. M., Madan E., Rhee S., Weng G., Palma A. M., Liao L., David E., Amit I., Hajkarim M. C., Vudatha V., Gutiérrez-García A., Moreno E., Winn R., Trevino J., Fisher P. B., Brickman J. M., Gogna R. & Won K. J. (2023), Proceedings of the National Academy of Sciences of the United States of America. 120, 2, e220537112
  • Distal fecal wash host transcriptomics identifies inflammation throughout the colon and terminal ileum

    Authors: Dan S., Ungar B., Ben-Moshe S., Halpern K. B., Yavzori M., Fudim E., Picard O., Abitbol C. M., Harnik S., Barshack I., Kopylov U., Ben-Horin S. & Itzkovitz S. (2023), Cellular and Molecular Gastroenterology and Hepatology. 16, 1, p. 1-15
  • Translation-A tug of war during viral infection

    Authors: Rozman B., Fisher T. & Stern-Ginossar N. (2023), Molecular Cell. 83, 3, p. 481-495
  • Physiological stress drives the emergence of a Salmonella subpopulation through ribosomal RNA regulation

    Authors: Ciolli Mattioli C., Eisner K., Rosenbaum A., Wang M., Amir A., Golding I. & Avraham R. (2023), Current Biology. 33, 22, p. 4880-4892.e14
  • MCProj: metacell projection for interpretable and quantitative use of transcriptional atlases

    Authors: Ben-Kiki O., Bercovich A., Lifshitz A., Raz O., Brook D. & Tanay A. (2023), GENOME BIOLOGY. 24, 1, 220
  • Phage display sequencing reveals that genetic, environmental, and intrinsic factors influence variation of human antibody epitope repertoire

    Authors: Andreu-Sánchez S., Bourgonje A. R., Vogl T., Kurilshikov A., Leviatan S., Ruiz-Moreno A. J., Hu S., Sinha T., Vich Vila A., Klompus S., Kalka I. N., de Leeuw K., Arends S., Jonkers I., Withoff S., Brouwer E., Weinberger A., Wijmenga C., Segal E. & Weersma R. K. (2023), Immunity. 56, 6, p. 1376-1392
  • Brief Announcement: Grassroots Distributed Systems: Concept, Examples, Implementation and Applications

  • Longitudinal machine learning uncouples healthy aging factors from chronic disease risks

    Authors: Cohen N. M., Lifshitz A., Jaschek R., Rinott E., Balicer R., Shlush L. I., Barbash G. I. & Tanay A. (2023), Nature Aging. 4, 1, p. 129-144
  • Unique features of transcription termination and initiation at closely spaced tandem human genes

    Authors: Nissani N. & Ulitsky I. (2022), Molecular Systems Biology. 18, 4, e10682
  • Host transcriptome signatures in human faecal-washes predict histological remission in patients with IBD

    Authors: Ungar B., Yavzori M., Fudim E., Picard O., Kopylov U., Eliakim R., Shouval D., Levin Y., Savidor A., Ben-Moshe S., Manco R., Dan S., Egozi A., Bahar Halpern K., Mayer C., Barshack I., Ben-Horin S. & Itzkovitz S. (2022), Gut. 71, 10, p. 1988-1997
  • Allergenic food protein consumption is associated with systemic IgG antibody responses in non-allergic individuals

    Authors: Leviatan S., Vogl T., Klompus S., Kalka I. N., Weinberger A. & Segal E. (2022), Immunity. 55, 12, p. 2454-2469.e6
  • Cvm1 is a component of multiple vacuolar contact sites required for sphingolipid homeostasis

    Authors: Bisinski D. D., Gomes Castro I., Mari M., Walter S., Fröhlich F., Schuldiner M. & González Montoro A. (2022), The Journal of Cell Biology. 221, 8, e202103048
  • Bacteria deplete deoxynucleotides to defend against bacteriophage infection

    Authors: Tal N., Millman A., Stokar Avihail A., Fedorenko T., Leavitt A., Melamed S., Yirmiya E., Avraham C., Brandis A., Mehlman T., Amitai G. & Sorek R. (2022), Nature Microbiology. 7, 8, p. 1200-1209
  • An expanded reference map of the human gut microbiome reveals hundreds of previously unknown species

    Authors: Leviatan S., Shoer S., Rothschild D., Gorodetski M. & Segal E. (2022), Nature Communications. 13, 3863
  • Cap-independent translation and a precisely located RNA sequence enable SARS-CoV-2 to control host translation and escape anti-viral response

    Authors: Slobodin B., Sehrawat U., Lev A., Hayat D., Zuckerman B., Fraticelli D., Ogran A., Ben-Shmuel A., Bar-David E., Levy H., Ulitsky I. & Dikstein R. (2022), Nucleic Acids Research. 50, 14, p. 8080-8092
  • Soluble Receptor for Advanced Glycation End Products (sRAGE) Isoforms Predict Changes in Resting Energy Expenditure in Adults with Obesity during Weight Loss

    Authors: Popp C. J., Zhou B., Manigrasso M. B., Li H., Curran M., Hu L., St-Jules D. E., Alemán J. O., Vanegas S. M., Jay M., Bergman M., Segal E., Sevick M. A. & Schmidt A. M. (2022), Current Developments in Nutrition. 6, 5, nzac046
  • Bispecific antibodies increase the therapeutic window of CD40 agonists through selective dendritic cell targeting

    Authors: Salomon R., Rotem H., Katzenelenbogen Y., Weiner A., Cohen Saban N., Feferman T., Amit I. & Dahan R. (2022), Nature Cancer. 3, p. 287-302
  • Fitness Landscape Analysis of a tRNA Gene Reveals that the Wild Type Allele is Sub-optimal, Yet Mutationally Robust

    Authors: Gabzi T., Pilpel Y. & Friedlander T. (2022), Molecular Biology and Evolution. 39, 9, msac178
  • Anti-CTLA-4 antibodies drive myeloid activation and reprogram the tumor microenvironment through FcγR engagement and type I interferon signaling

    Authors: Yofe I., Landsberger T., Yalin A., Solomon I., Costoya C., Demane D. F., Shah M., David E., Borenstein C., Barboy O., Matos I., Peggs K. S., Quezada S. A. & Amit I. (2022), Nature Cancer. 3, p. 1336-1350
  • Cancer microbiome

    Authors: Zitvogel L., Straussman R., Sepich-Poore G. D., Knight R., Iliev I. D., Sears C. L., Bullman S., Jobin C. & Zarour H. M. (2022), Cancer Cell. 40, 12, p. 1443-1447
  • Genome-Wide Association Analysis of Over 170,000 Individuals from the UK Biobank Identifies Seven Loci Associated with Dietary Approaches to Stop Hypertension (DASH) Diet

    Authors: Mompeo O., Freidin M. B., Gibson R., Hysi P. G., Christofidou P., Segal E., Valdes A. M., Spector T. D., Menni C. & Mangino M. (2022), Nutrients. 14, 20, 4431
  • m6A is required for resolving progenitor identity during planarian stem cell differentiation

    Authors: Dagan Y., Yesharim Y., Bonneau A. R., Frankovits T., Schwartz S., Reddien P. W. & Wurtzel O. (2022), The EMBO Journal. 41, 21, e109895
  • Tumor-reactive antibodies evolve from non-binding and autoreactive precursors

    Authors: Mazor R. D., Nathan N., Gilboa A., Stoler-Barak L., Moss L., Solomonov I., Hanuna A., Divinsky Y., Shmueli M. D., Hezroni H., Zaretsky I., Mor M., Golani O., Sabah G., Jakobson-Setton A., Yanichkin N., Feinmesser M., Tsoref D., Salman L., Yeoshoua E., Peretz E., Erlich I., Mendelson Cohen N., Gershoni J. M., Freund N., Merbl Y., Yaari G., Eitan R., Sagi I. & Shulman Z. (2022), Cell. 185, 7, p. 1208-1222
  • Microglia states and nomenclature: A field at its crossroads

    Authors: Paolicelli R. C., Sierra A., Stevens B., Tremblay M., Aguzzi A., Ajami B., Amit I., Audinat E., Bechmann I., Bennett M., Bennett F., Bessis A., Biber K., Bilbo S., Blurton-Jones M., Boddeke E., Brites D., Brône B., Brown G. C., Butovsky O., Carson M. J., Castellano B., Colonna M., Cowley S. A., Cunningham C., Davalos D., De Jager P. L., de Strooper B., Denes A., Eggen B. J., Eyo U., Galea E., Garel S., Ginhoux F., Glass C. K., Gokce O., Gomez-Nicola D., González B., Gordon S., Graeber M. B., Greenhalgh A. D., Gressens P., Greter M., Gutmann D. H., Haass C., Heneka M. T., Heppner F. L., Hong S., Hume D. A., Jung S., Kettenmann H., Kipnis J., Koyama R., Lemke G., Lynch M., Majewska A., Malcangio M., Malm T., Mancuso R., Masuda T., Matteoli M., McColl B. W., Miron V. E., Molofsky A. V., Monje M., Mracsko E., Nadjar A., Neher J. J., Neniskyte U., Neumann H., Noda M., Peng B., Peri F., Perry V. H., Popovich P. G., Pridans C., Priller J., Prinz M., Ragozzino D., Ransohoff R. M., Salter M. W., Schaefer A., Schafer D. P., Schwartz M., Simons M., Smith C. J., Streit W. J., Tay T. L., Tsai L., Verkhratsky A., von Bernhardi R., Wake H., Wittamer V., Wolf S. A., Wu L. & Wyss-Coray T. (2022), Neuron. 110, 21, p. 3458-3483
  • Systemic antibody responses against human microbiota flagellins are overrepresented in chronic fatigue syndrome patients

    Authors: Vogl T., Kalka I. N., Klompus S., Leviatan S., Weinberger A. & Segal E. (2022), Science advances. 8, 38, eabq2422
  • Protection by a Fourth Dose of BNT162b2 against Omicron in Israel

    Authors: Bar‐On Y. M., Goldberg Y., Mandel M., Bodenheimer O., Amir O., Freedman L., Alroy-Preis S., Ash N., Huppert A. & Milo R. (2022), The New England journal of medicine. 386, 18, p. 1712-1720
  • BIPS—A code base for designing and coding of a Phage ImmunoPrecipitation Oligo Library

    Authors: Leviatan S., Kalka I. N., Vogl T., Klompas S., Weinberger A. & Segal E. (2022), PLoS Computational Biology. 18, 11, e1010663
  • Evolution of transcription factor binding through sequence variations and turnover of binding sites

    Authors: Krieger G., Lupo O., Wittkopp P. & Barkai N. (2022), Genome Research. 32, 6, p. 1099-1111
  • Antibody signatures in inflammatory bowel disease: current developments and future applications

    Authors: Bourgonje A. R., Vogl T., Segal E. & Weersma R. K. (2022), Trends in Molecular Medicine. 28, 8, p. 693-705
  • Effects of personalized diets by prediction of glycemic responses on glycemic control and metabolic health in newly diagnosed T2DM: a randomized dietary intervention pilot trial

    Authors: Rein M., Ben-Yacov O., Godneva A., Shilo S., Zmora N., Kolobkov D., Cohen-Dolev N., Wolf B., Kosower N., Lotan-Pompan M., Weinberger A., Halpern Z., Zelber-Sagi S., Elinav E. & Segal E. (2022), BMC Medicine. 20, 56
  • Dual ontogeny of disease-associated microglia and disease inflammatory macrophages in aging and neurodegeneration

    Authors: Silvin' A., Uderhardt S., Piot C., Da Mesquita S., Yang K., Geirsdottir L., Mulder K., David E., Liu Z., Bridlance C., Thion M. S., Zhang X., Ting Kong W., Deloger M., Fontes V., Weiner A., Ee R., Dress R., Wen Hang J., Balachander A., Chakarov S., Malleret B., Dunsmore G., Cexus O., Chen J., Garel S., Dutertre C. A., Amit I., Kipnis J. & Ginhoux F. (2022), Immunity. 55, 8, p. 1448-1465.e6
  • DestVI identifies continuums of cell types in spatial transcriptomics data

    Authors: Lopez R., Li B., Keren-Shaul H., Boyeau P., Kedmi M., Pilzer D., Jelinski A., Yofe I., David E., Wagner A., Ergen C., Addadi Y., Golani O., Ronchese F., Jordan M. I., Amit I. & Yosef N. (2022), Nature biotechnology. 40, 9, p. 1360-1369
  • Beyond rare disorders: A new era for peroxisomal pathophysiology

    Authors: Zalckvar E. & Schuldiner M. (2022), Molecular Cell. 82, 12, p. 2228-2235
  • Nucleoporin-93 reveals a common feature of aggressive breast cancers: robust nucleocytoplasmic transport of transcription factors

    Authors: Belugali Nataraj N., Noronha A., Lee J. S., Ghosh S., Mohan Raju H. R., Sekar A., Zuckerman B., Lindzen M., Tarcitano E., Srivastava S., Selitrennik M., Livneh I., Drago-Garcia D., Rueda O. M., Caldas C., Lev S., Geiger T., Ciechanover A., Ulitsky I., Seger R., Ruppin E. & Yarden Y. (2022), Cell Reports. 38, 8, 110418
  • Immunometabolic crosstalk during bacterial infection

    Authors: Rosenberg G., Riquelme S., Prince A. & Avraham R. (2022), Nature Microbiology. 7, 4, p. 497-507
  • Parsing the role of NSP1 in SARS-CoV-2 infection

    Authors: Fisher T., Gluck A., Narayanan K., Kuroda M., Nachshon A., Hsu J. C., Halfmann P. J., Yahalom-Ronen Y., Tamir H., Finkel Y., Schwartz M., Weiss S., Tseng C. K., Israely T., Paran N., Kawaoka Y., Makino S. & Stern-Ginossar N. (2022), Cell reports (Cambridge). 39, 11, 110954
  • Prediction of type 2 diabetes mellitus onset using logistic regression-based scorecards

    Authors: Edlitz Y. & Segal E. (2022), eLife. 11, e71862
  • Cloning of DNA oligo pools for in vitro expression

    Authors: Uzonyi A., Nir R. & Schwartz S. (2022), STAR Protocols. 3, 1, 101103
  • The DarTG toxin-antitoxin system provides phage defence by ADP-ribosylating viral DNA

    Authors: LeRoux M., Srikant S., Teodoro G. I., Zhang T., Littlehale M. L., Doron S., Badiee M., Leung A. K., Sorek R. & Laub M. T. (2022), Nature Microbiology. 7, 7, p. 1028-1040
  • YTHDF2 suppresses the plasmablast genetic program and promotes germinal center formation

    Authors: Grenov A., Hezroni H., Lasman L., Hanna J. H. & Shulman Z. (2022), Cell reports (Cambridge). 39, 5, 110778
  • PDBe-KB: collaboratively defining the biological context of structural data

    Authors: Dey S., Levy E. D., London N., Prilusky J. & Zaidman D. (2022), Nucleic Acids Research. 50, D1, p. D534-D542
  • Whole-Genome Amplification-Surveying Yield, Reproducibility, and Heterozygous Balance, Reported by STR-Targeting MIPs

    Authors: Raz O., Tao L., Biezuner T., Marx T., Neumeier Y., Tumanyan N. & Shapiro E. (2022), International Journal of Molecular Sciences. 23, 11, 6161
  • Molecular and environmental determinants of biomolecular condensate formation

    Authors: Villegas J. A., Heidenreich M. & Levy E. D. (2022), Nature Chemical Biology. 18, 12, p. 1319-1329
  • Synthetic condensate size correlates with yeast replicative cell age

    Authors: Heidenreich M., Georgeson J. M., Nadav Y. & Levy E. D. (2022), microPublication biology. 2022, 6
  • Generation of specialized blood vessels via lymphatic transdifferentiation

    Authors: Das R. N., Tevet Y., Safriel S., Han Y., Moshe N., Lambiase G., Bassi I., Nicenboim J., Brückner M., Hirsch D., Eilam-Altstadter R., Herzog W., Avraham R., Poss K. D. & Yaniv K. (2022), Nature. 606, 7914, p. 570-575
  • An expanded arsenal of immune systems that protect bacteria from phages

    Authors: Millman A., Melamed S., Leavitt A., Doron S., Bernheim A., Hör J., Garb J., Bechon N., Brandis A., Lopatina A., Ofir G., Hochhauser D., Stokar-Avihail A., Tal N., Sharir S., Voichek M., Erez Z., Ferrer J. L. M., Dar D., Kacen A., Amitai G. & Sorek R. (2022), Cell Host & Microbe. 30, 11, p. 1556-1569e5
  • BREAst Cancer Personalised NuTrition (BREACPNT): dietary intervention in breast cancer survivors treated with endocrine therapy – a protocol for a randomised clinical trial

    Authors: Rein M. S., Dadiani M., Godneva A., Bakalenik-Gavry M., Morzaev-Sulzbach D., Vachnish Y., Kolobkov D., Lotan-Pompan m., Weinberger A., Segal E. & Gal-Yam E. N. (2022), BMJ Open. 12, 11, e062498
  • Prediction of Personal Glycemic Responses to Food for Individuals With Type 1 Diabetes Through Integration of Clinical and Microbial Data

    Authors: Shilo S., Godneva A., Rachmiel M., Korem T., Kolobkov D., Karady T., Bar N., Wolf B. C., Glantz-Gashai Y., Cohen M., Zuckerman Levin N., Shehadeh N., Gruber N., Levran N., Koren S., Weinberger A., Pinhas-Hamiel O. & Segal E. (2022), Diabetes Care. 45, 3, p. 502-511
  • eQuilibrator 3.0: a database solution for thermodynamic constant estimation

    Authors: Beber M. E., Gollub M. G., Mozaffari D., Shebek K. M., Flamholz A., Milo R. & Noor E. (2022), Nucleic Acids Research. 50, D1, p. D603-D609
  • Transcriptome and chromatin alterations in social fear indicate association of MEG3 with successful extinction of fear

    Authors: Royer M., Pai B., Menon R., Bludau A., Gryksa K., Perry R. B., Ulitsky I., Meister G. & Neumann I. D. (2022), Molecular Psychiatry. 27, p. 4064-4076
  • Trimming Trem2 and possible impacts on the metabolic syndrome

    Authors: Shapiro H., Leshem A. & Elinav E. (2022), The Journal of physiology. 600, 20, p. 4387-4388
  • DNA methyltransferases 3A and 3B target specific sequences during mouse gastrulation

    Authors: Mukamel Z., Lifshitz A., Mittnenzweig M., Chomsky E., Scwartzman O., Ben-Kiki O., Zerbib M. & Tanay A. (2022), Nature Structural and Molecular Biology. 29, 12, p. 1252-1265
  • Dynamics of thyroid diseases and thyroid-axis gland masses

    Authors: Korem Kohanim Y., Milo T., Raz M., Karin O., Bar A., Mayo A., Mendelson Cohen N., Toledano Y. & Alon U. (2022), Molecular Systems Biology. 18, 8, e10919
  • Rtt109 promotes nucleosome replacement ahead of the replication fork

    Authors: Jonas F., Yaakov G. & Barkai N. (2022), Genome Research. 32, 6, p. 1089-1098
  • Dissecting Human Blood Immune Cells Response to Intracellular Infection Using Single-Cell RNA Sequencing

    Authors: Hen-Avivi S. & Avraham R. (2022), Methods in Molecular Biology. p. 133-147
  • Protection and Waning of Natural and Hybrid Immunity to SARS-CoV-2

    Authors: Goldberg Y., Mandel M., Bar-On Y. M., Bodenheimer O., Freedman L. S., Ash N., Alroy-Preis S., Huppert A. & Milo R. (2022), The New England journal of medicine. 386, 23, p. 2201-2212
  • Whole-genome sequencing reveals that variants in the Interleukin 18 Receptor Accessory Protein 3′UTR protect against ALS

    Authors: Eitan C., Siany A., Barkan E., Olender T., Yanowski E., Marmor-Kollet H., Chapnik E., Ainbinder E., Ben-Dor S., Segal E. & Hornstein E. (2022), Nature Neuroscience. 25, 4, p. 433-445
  • Publisher Correction: XCR1 + type 1 conventional dendritic cells drive liver pathology in non-alcoholic steatohepatitis (Nature Medicine, (2021), 27, 6, (1043-1054), 10.1038/s41591-021-01344-3)

    Authors: Deczkowska A., David E., Ramadori P., Pfister D., Safran M., Li B., Giladi A., Jaitin D. A., Barboy O., Cohen M., Yofe I., Gur C., Shlomi-Loubaton S., Henri S., Suhail Y., Qiu M., Kam S., Hermon H., Lahat E., Ben Yakov G., Cohen-Ezra O., Davidov Y., Likhter M., Goitein D., Roth S., Weber A., Malissen B., Weiner A., Ben-Ari Z., Heikenwälder M., Elinav E. & Amit I. (2022),
  • Anthroponumbers.org: A quantitative database of human impacts on Planet Earth

    Authors: Chure G., Banks R. A., Flamholz A. I., Sarai N. S., Kamb M., Lopez-Gomez I., Bar-On Y., Milo R. & Phillips R. (2022), Patterns. 100552
  • Phenotypic correlates of the working dog microbiome

    Authors: Craddock H. A., Godneva A., Rothschild D., Motro Y., Grinstein D., Lotem-Michaeli Y., Narkiss T., Segal E. & Moran-Gilad J. (2022), npj Biofilms and Microbiomes. 8, 66
  • The industrial genomic revolution: A new era in neuroimmunology

    Authors: Shalita R. & Amit I. (2022), Neuron (Cambridge, Mass.). 110, 21, p. 3429-3443
  • Stabilization of hESCs in two distinct substates along the continuum of pluripotency

    Authors: Dekel C., Morey R., Hanna J., Laurent L. C., Ben-Yosef D. & Amir H. (2022), iScience. 25, 12, 105469
  • Maintaining Golgi Homeostasis: A Balancing Act of Two Proteolytic Pathways

    Authors: Benyair R., Eisenberg-Lerner A. & Merbl Y. (2022), Cells (Basel, Switzerland). 11, 5, 780
  • A systematic dissection of determinants and consequences of snoRNA-guided pseudouridylation of human mRNA

    Authors: Nir R., Hoernes T. P., Muramatsu H., Faserl K., Karikó K., Erlacher M. D., Sas-Chen A. & Schwartz S. (2022), Nucleic Acids Research. 50, 9, p. 4900-4916
  • Recording bacterial responses to changes in the gut environment

  • Effect of a Personalized Diet to Reduce Postprandial Glycemic Response vs a Low-fat Diet on Weight Loss in Adults With Abnormal Glucose Metabolism and Obesity: A Randomized Clinical Trial

    Authors: Popp C. J., Hu L., Kharmats A. Y., Curran M., Berube L., Wang C., Pompeii M. L., Illiano P., St-Jules D. E., Mottern M., Li H., Williams N., Schoenthaler A., Segal E., Godneva A., Thomas D., Bergman M., Schmidt A. M. & Sevick M. A. (2022), JAMA network open. 5, 9, p. E2233760, e2233760
  • LGR5 expressing skin fibroblasts define a major cellular hub perturbed in scleroderma

    Authors: Gur C., Wang S., Sheban F., Zada M., Li B., Kharouf F., Peleg H., Aamar S., Yalin A., Kirschenbaum D., Braun-Moscovici Y., Jaitin D. A., Meir-Salame T., Hagai E., Kragesteen B. K., Avni B., Grisariu S., Bornstein C., Shlomi-Loubaton S., David E., Shreberk-Hassidim R., Molho-Pessach V., Amar D., Tzur T., Kuint R., Gross M., Barboy O., Moshe A., Fellus-Alyagor L., Hirsch D., Addadi Y., Erenfeld S., Biton M., Tzemach T., Elazary A., Naparstek Y., Tzemach R., Weiner A., Giladi A., Balbir-Gurman A. & Amit I. (2022), Cell. 185, 8, p. 1373-1388.e20
  • Distinct gene programs underpinning disease tolerance and resistance in influenza virus infection

    Authors: Cohn O., Yankovitz G., Peshes-Yaloz N., Steuerman Y., Frishberg A., Brandes R., Mandelboim M., Hamilton J. R., Hagai T., Amit I., Netea M. G., Hacohen N., Iraqi F. A., Bacharach E. & Gat-Viks I. (2022), Cell Systems. 13, 12, p. 1002-1015.e9
  • Glucosylated nanoparticles for the oral delivery of antibiotics to the proximal small intestine protect mice from gut dysbiosis

    Authors: Zhang G., Wang Q., Tao W., Jiang W., Elinav E., Wang Y. & Zhu S. (2022), Nature Biomedical Engineering. 6, p. 867-881
  • Dimensionality reduction of longitudinal 'omics data using modern tensor factorizations

    Authors: Mor U., Cohen Y., Valdés-Mas R., Kviatcovsky D., Elinav E. & Avron H. (2022), PLoS Computational Biology. 18, 7, e1010212
  • Affinity and Valence Impact the Extent and Symmetry of Phase Separation of Multivalent Proteins

    Authors: Nandi S. K., Österle D., Heidenreich M., Levy E. D. & Safran S. A. (2022), Physical review letters. 129, 12, 128102
  • Human microglia development in the embryonic brain

    Authors: Li B., Li Y., Li Z., Jiao J. & Amit I. (2022), Life Medicine. 1, 2, p. 55-57
  • Antisense pairing and SNORD13 structure guide RNA cytidine acetylation

    Authors: Thalalla Gamage S., Bortolin-Cavaillé M., Link C., Bryson K., Sas-Chen A., Schwartz S., Cavaillé J. & Meier J. L. (2022), RNA. 28, 12, p. 1582-1596
  • A Mechanism for Ovulation Number Control

    Authors: Shilo M., Mayo A. & Alon U. (2022), Frontiers in endocrinology (Lausanne). 13, 816967
  • Smoking-induced microbial dysbiosis in health and disease

    Authors: Shapiro H., Goldenberg K., Ratiner K. & Elinav E. (2022), Clinical science (1979). 136, 18, p. 1371-1387
  • The modular cell gets connected: Integrative molecular cell biology can be used to interpret networks beyond modules

  • Personalized microbiome-driven effects of non-nutritive sweeteners on human glucose tolerance

    Authors: Suez J., Cohen Y., Valdés-Mas R., Mor U., Dori-Bachash M., Federici S., Zmora N., Leshem A., Heinemann M., Linevsky R., Zur M., Ben-Zeev Brik R., Bukimer A., Eliyahu-Miller S., Metz A., Fischbein R., Sharov O., Malitsky S., Itkin M., Stettner N., Harmelin A., Shapiro H., Stein-Thoeringer C. K., Segal E. & Elinav E. (2022), Cell. 185, 18, p. 3307-3328.e19
  • Microbiome and metabolome features of the cardiometabolic disease spectrum

    Authors: Fromentin S., Forslund S. K., Chechi K., Bar N. & Segal E. (2022), Nature Medicine. 28, 2, p. 303-314
  • Ex vivo organotypic cultures for synergistic therapy prioritization identify patient-specific responses to combined MEK and Src inhibition in colorectal cancer

    Authors: Gavert N., Zwang Y., Weiser R., Greenberg O., Halperin S., Jacobi O., Mallel G., Sandler O., Berger A. J., Stossel E., Rotin D., Grinshpun A., Kamer I., Barzs J., Pines G., Saidian D., Bar I., Golan S., Rosenbaum E., Nadu A., Ben-Ami E., Weitzen R., Nechushtan H., Golanz T., Brenner B., Nissan A., Margalitzs O., Hershkovitz D., Lahat G. & Straussman R. (2022), Nature Cancer. 3, 2, p. 219-231
  • Bacterial gasdermins reveal an ancient mechanism of cell death

    Authors: Johnson A. G., Wein T., Mayer M. L., Duncan-Lowey B., Yirmiya E., Oppenheimer-Shaanan Y., Amitai G., Sorek R. & Kranzusch P. J. (2022), Science (American Association for the Advancement of Science). 375, 6577, p. 221-225
  • Compartmentalization of the host microbiome: how tumor microbiota shapes checkpoint immunotherapy outcome and offers therapeutic prospects

    Authors: Boesch M., Horvath L., Baty F., Pircher A., Wolf D., Spahn S., Straussman R., Tilg H. & Brutsche M. H. (2022), Journal for ImmunoTherapy of Cancer. 10, e005401
  • Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions

    Authors: Narunsky-Haziza L., Sepich-Poore G. D., Livyatan I., Asraf O., Martino C., Nejman D., Gavert N., Stajich J. E., Amit G., González A., Wandro S., Perry G., Ariel R., Meltser A., Shaffer J. P., Zhu Q., Balint-Lahat N., Barshack I., Dadiani M., Gal-Yam E. N., Patel S. P., Bashan A., Swafford A. D., Pilpel Y., Knight R. & Straussman R. (2022), Cell. 185, 20, p. 3789-3806
  • Substoichiometric action of long noncoding RNAs

    Authors: Unfried J. P. & Ulitsky I. (2022), Nature Cell Biology. 24, 5, p. 608-615
  • Short prokaryotic Argonautes provide defence against incoming mobile genetic elements through NAD(+) depletion

    Authors: Zaremba M., Dakineviciene D., Golovinas E., Zagorskaite E., Stankunas E., Lopatina A., Sorek R., Manakova E., Ruksenaite A., Silanskas A., Asmontas S., Grybauskas A., Tylenyte U., Jurgelaitis E., Grigaitis R., Timinskas K., Venclovas C. & Siksnys V. (2022), Nature Microbiology. 7, 11, p. 1857-1869
  • Human primed and naïve PSCs are both able to differentiate into trophoblast stem cells

    Authors: Viukov S., Shani T., Bayerl J., Aguilera-Castrejon A., Oldak B., Sheban D., Tarazi S., Stelzer Y., Hanna J. H. & Novershtern N. (2022), Stem Cell Reports. 17, 11, p. 2484-2500
  • TATTOO-seq delineates spatial and cell type–specific regulatory programs in the developing limb

    Authors: Bastide S., Chomsky E., Saudemont B., Loe-Mie Y., Schmutz S., Novault S., Marlow H., Tanay A. & Spitz F. (2022), Science advances. 8, 50, eadd0695
  • Rejuvenation strategies share gene expression programs of reduced inflammation and downstream restored fatty acid metabolism

    Authors: Landsberger T., Amit I. & Alon U. (2022), BioRxiv.
  • RNA-controlled nucleocytoplasmic shuttling of mRNA decay factors regulates mRNA synthesis and a novel mRNA decay pathway

    Authors: Chattopadhyay S., Garcia-Martinez J., Haimovich G., Fischer J., Khwaja A., Barkai O., Chuartzman S. G., Schuldiner M., Elran R., Rosenberg M. I., Urim S., Deshmukh S., Bohnsack K. E., Bohnsack M. T., Perez-Ortin J. E. & Choder M. (2022), Nature Communications. 13, 1, 7184
  • The Gut Microbiome of Adults With Type 1 Diabetes and Its Association With the Host Glycemic Control

    Authors: Shilo S., Godneva A., Rachmiel M., Korem T., Bussi Y., Kolobkov D., Karady T., Bar N., Wolf B. C., Glantz-Gashai Y., Cohen M., Levin N. Z., Shehadeh N., Gruber N., Levran N., Koren S., Weinberger A., Pinhas-Hamiel O. & Segal E. (2022), Diabetes Care. 45, 3, p. 555-563
  • Metabolomic and microbiome profiling reveals personalized risk factors for coronary artery disease

    Authors: Talmor-Barkan Y., Bar N., Shaul A. A., Shahaf N., Godneva A., Bussi Y., Lotan-Pompan M., Weinberger A., Shechter A., Chezar-Azerrad C., Arow Z., Hammer Y., Chechi K., Forslund S. K., Fromentin S., Dumas M., Ehrlich S. D., Pedersen O., Kornowski R. & Segal E. (2022), Nature Medicine. 28, 2, p. 295-302
  • Local and systemic effects of microbiome‐derived metabolites

    Authors: Spivak I., Fluhr L. & Elinav E. (2022), EMBO Reports. 23, 10, e55664
  • Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics

    Authors: Rothová M. M., Nielsen A. V., Proks M., Wong Y. F., Riveiro A. R., Linneberg-Agerholm M., David E., Amit I., Trusina A. & Brickman J. M. (2022), Nature Cell Biology. 24, 6, p. 833-844
  • OCT4 activates a Suv39h1-repressive antisense lncRNA to couple histone H3 Lysine 9 methylation to pluripotency

    Authors: Bernard L. D., Dubois A., Heurtier V., Fischer V., Gonzalez I., Chervova A., Tachtsidi A., Gil N., Owens N., Bates L. E., Vandormael-Pournin S., Silva J. C. R., Ulitsky I., Cohen-Tannoudji M. & Navarro P. (2022), Nucleic Acids Research. 50, 13, p. 7367-7379
  • Identification and functional implications of pseudouridine RNA modification on small non-coding RNAs in the mammalian pathogen Trypanosoma brucei

    Authors: Rajan K. S., Adler K., Doniger T., Cohen-Chalamish S., Aharon-Hefetz N., Aryal S., Pilpel Y., Tschudi C., Unger R. & Michaeli S. (2022), The journal of Biological chemistry. 298, 7, 102141
  • Omicron infection enhances Delta antibody immunity in vaccinated persons

    Authors: Khan K., Karim F., Cele S., Rosenberg Y. & Milo R. (2022), Nature (London). 607, 7918, p. 256-259
  • Spatiotemporal Omics-Refining the landscape of precision medicine

    Authors: Zhang J., Yin J., Heng Y., Xie K., Chen A., Amit I., Bian X. & Xu X. (2022), Life Medicine. 1, 2, p. 84-102
  • Single-cell immunology: Past, present, and future

    Authors: Ginhoux F., Yalin A., Dutertre C. A. & Amit I. (2022), Immunity (Cambridge, Mass.). 55, 3, p. 393-404
  • Embryo model completes gastrulation to neurulation and organogenesis

    Authors: Amadei G., Handford C. E., Qiu C., De Jonghe J., Greenfeld H., Tran M., Martin B. K., Chen D., Aguilera-Castrejon A., Hanna J. H., Elowitz M., Hollfelder F., Shendure J., Glover D. M. & Zernicka-Goetz M. (2022), Nature (London). 610, 7930, p. 143-153
  • The interaction of CD4+ helper T cells with dendritic cells shapes the tumor microenvironment and immune checkpoint blockade response

    Authors: Cohen M., Giladi A., Barboy O., Hamon P., Li B., Zada M., Gurevich-Shapiro A., Beccaria C. G., David E., Maier B. B., Buckup M., Kamer I., Deczkowska A., Le Berichel J., Bar J., Iannacone M., Tanay A., Merad M. & Amit I. (2022), Nature Cancer. 3, p. 303-317
  • SnapShot: Bacterial immunity

    Authors: Tal N. & Sorek R. (2022),
  • The History of Question Marks and Exclamation Marks across Languages: Punctuation Culturomics

    Authors: Pilpel Y. (2022), Default journal. p. 1-6
  • Nuclear localization of Meg3-ex10 in mice lateral septum after social fear extinction

    Authors: Royer M., Pai B., Menon R., Bludau A., Gryksa K., Perry R. B. T., Ulitsky I., Meister G. & Neumann I. D. (2022),
  • QSalignWeb: A Server to Predict and Analyze Protein Quaternary Structure

    Authors: Dey S., Prilusky J. & Levy E. D. (2022), Frontiers in Molecular Biosciences. 8, 787510
  • Controls for Phylogeny and Robust Analysis in Pareto Task Inference

    Authors: Adler M., Tendler A., Hausser J., Korem Y., Szekely P., Bossel N., Hart Y., Karin O., Mayo A. & Alon U. (2022), Molecular Biology and Evolution. 39, 1, msab297
  • Post-Gastrulation Synthetic Embryos Generated Ex Utero from Mouse Naïve ESCs

    Authors: Tarazi S., Aguilera Castrejon A., Joubran C., Ghanem N., Ashouokhi S., Roncato F., Wildschutz E., Haddad M., Oldak B., Gomez-Cesar E., Livnat N., Viukov S., Lukshtanov D., Naveh Tassa S., Rose M., Issaq - Hanna S., Raanan C., Brenner O. J., Kedmi M., Keren-Shaul H., Lapidot T., Maza I., Novershtern N. & Hanna J. (. (2022), Cell. 185, 18, p. 3290-3306.e25
  • A spatiotemporally resolved single-cell atlas of the Plasmodium liver stage

    Authors: Afriat A., Zuzarte-Luis V., Halpern K. B., Buchauer L., Marques S., Chora A. F., Lahree A., Amit I., Mota M. M. & Itzkovitz S. (2022), Nature (London). 611, 7936, p. 563-569
  • The unmitigated profile of COVID-19 infectiousness

    Authors: Sender R., Bar-On Y., Park S. W., Noor E., Dushoff J. & Milo R. (2022), eLife. 11, e79134
  • A shared disease-associated oligodendrocyte signature among multiple CNS pathologies

    Authors: Kenigsbuch M., Bost P., Halevi S., Chang Y., Chen S., Ma Q., Hajbi R., Schwikowski B., Bodenmiller B., Fu H., Schwartz M. & Amit I. (2022), Nature Neuroscience. 25, p. 876-886
  • Determining the targeting specificity of the selective peroxisomal targeting factor Pex9

    Authors: Yifrach E., Rudowitz M., Cruz-Zaragoza L. D., Tirosh A., Gazi Z., Peleg Y., Kunze M., Eisenstein M., Schliebs W., Schuldiner M., Erdmann R. & Zalckvar E. (2022), Biological Chemistry. 404, 2-3, p. 121-133
  • Phage anti-CBASS and anti-Pycsar nucleases subvert bacterial immunity

    Authors: Hobbs S. J., Wein T., Lu A., Morehouse B. R., Schnabel J., Leavitt A., Yirmiya E., Sorek R. & Kranzusch P. J. (2022), Nature (London). 605, 7910, p. 522-526
  • Peroxisome function relies on organelle-associated mRNA translation

    Authors: Dahan N., Bykov Y. S., Boydston E. A., Fadel A., Gazi Z., Hochberg-Laufer H., Martenson J., Denic V., Shav-Tal Y., Weissman J. S., Aviram N., Zalckvar E. & Schuldiner M. (2022), Science advances. 8, 2, eabk2141
  • Recent insights into mammalian natural and synthetic ex utero embryogenesis

    Authors: Oldak B., Aguilera-Castrejon A. & Hanna J. H. (2022), Current opinion in genetics & development. 77, 101988
  • Targeted suppression of human IBD-associated gut microbiota commensals by phage consortia for treatment of intestinal inflammation

    Authors: Federici S., Kredo-Russo S., Valdes Mas R., Kviatcovsky D., Weinstock E., Matiuhin Y., Silberberg Y., Atarashi K., Furuichi M., Oka A., Liu B., Fibelman M., Weiner I., Khabra E., Cullin N., Ben-Yishai N., Inbar D., Ben David H., Nicenboim J., Kowalsman N., Lieb W., Kario E., Cohen T., Friedman Geffen Y., Zelcbuch L., Cohen A., Rappo U., Gahali-Sass I., Golembo M., Lev Goldman V., Dori-Bachash M., Shapiro H., Moresi C., Cuevas Sierra A., Mohapatra G., Kern L., Zheng D., Nobs S. P., Suez J., Harmelin A., Stettner N., Zak N., Puttagunta S., Bassan M., Honda K., Sokol H., Bang C., Franke A., Schramm C., Maharshak N., Balfour Sartor R., Sorek R. & Elinav E. (2022), Cell. 185, 16, p. 2879-2898.e24
  • How gene duplication diversifies the landscape of protein oligomeric state and function

    Authors: Mallik S., Tawfik D. S. & Levy E. D. (2022), Current opinion in genetics & development. 76, 101966
  • Research gaps and opportunities in precision nutrition: an NIH workshop report

    Authors: Lee B. Y., Ordovás J. M., Parks E. J., Anderson C. A., Barabási A. L., Clinton S. K., de la Haye K., Duffy V. B., Franks P. W., Ginexi E. M., Hammond K. J., Hanlon E. C., Hittle M., Ho E., Horn A. L., Isaacson R. S., Mabry P. L., Malone S., Martin C. K., Mattei J., Meydani S. N., Nelson L. M., Neuhouser M. L., Parent B., Pronk N. P., Roche H. M., Saria S., Scheer F. A., Segal E., Sevick M. A., Spector T. D., Van Horn L., Varady K. A., Voruganti V. S. & Martinez M. F. (2022), The American journal of clinical nutrition. 116, 6, p. 1877-1900
  • Estimating the effect of cesarean delivery on long-term childhood health across two countries

    Authors: Keshet A., Rossman H., Shilo S., Barbash-Hazan S., Amit G., Bivas-Benita M., Yanover C., Girshovitz I., Akiva P., Ben-Haroush A., Hadar E., Wiznitzer A. & Segal E. (2022), PLoS ONE. 17, 10, e0268103
  • Temporal dynamics of HCMV gene expression in lytic and latent infections

    Authors: Rozman B., Nachshon A., Levi Samia R., Lavi M., Schwartz M. & Stern-Ginossar N. (2022), Cell reports (Cambridge). 39, 2, 110653
  • Physically interacting beta-delta pairs in the regenerating pancreas revealed by single-cell sequencing

    Authors: Yanowski E., Yacovzada N. S., David E., Giladi A., Jaitin D., Farack L., Egozi A., Ben-Zvi D., Itzkovitz S., Amit I. & Hornstein E. (2022), Molecular metabolism (Germany). 60, 101467
  • Bacterial origins of human cell-autonomous innate immune mechanisms

    Authors: Wein T. & Sorek R. (2022), Nature reviews. Immunology. 22, p. 629-638
  • Discovering functional motifs in long noncoding RNAs

    Authors: Ross C. J. & Ulitsky I. (2022), Wiley Interdisciplinary Reviews: RNA. 13, 4, e1708
  • DAP5 drives translation of specific mRNA targets with upstream ORFs in human embryonic stem cells

    Authors: David M., Olender T., Mizrahi O., Weingarten-Gabbay S., Friedlander G., Meril S., Goldberg N., Savidor A., Levin Y., Salomon V., Stern-Ginossar N., Bialik S. & Kimchi A. (2022), RNA (Cambridge). 28, 10, p. 1325-1336
  • Bacterial infection disrupts established germinal center reactions through monocyte recruitment and impaired metabolic adaptation

    Authors: Biram A., Liu J., Hezroni-Bravyi H., Davidzohn N., Schmiedel D., Khatib-Massalha E., Haddad M., Grenov C. A., Lebon S., Salame T. M., Dezorella N., Hoffman D., Abou Karam P., Biton M., Lapidot T., Bemark M., Avraham R., Jung S. & Shulman Z. (2022), Immunity. 55, 3, p. 442-458.e8
  • Gastrointestinal microbiome: Evaluation of testing technologies

    Authors: Spivak I. & Elinav E. (2022), Esophageal Disease and the Role of the Microbiome. p. 147-161
  • Probing small ribosomal subunit RNA helix 45 acetylation across eukaryotic evolution

    Authors: Bortolin-Cavaillé M. L., Quillien A., Gamage S. T., Thomas J. M., Sas-Chen A., Sharma S., Plisson-Chastang C., Vandel L., Blader P., Lafontaine D. L., Schwartz S., Meier J. L. & Cavaillé J. (2022), Nucleic Acids Research. 50, 11, p. 6284-6299
  • MYCN mediates cysteine addiction and sensitizes neuroblastoma to ferroptosis

    Authors: Alborzinia H., Flórez A. F., Kreth S., Brückner L. M., Yildiz U., Gartlgruber M., Odoni D. I., Poschet G., Garbowicz K., Shao C., Klein C., Meier J., Zeisberger P., Nadler-Holly M., Ziehm M., Paul F., Burhenne J., Bell E., Shaikhkarami M., Würth R., Stainczyk S. A., Wecht E. M., Kreth J., Büttner M., Ishaque N., Schlesner M., Nicke B., Stresemann C., Llamazares-Prada M., Reiling J. H., Fischer M., Amit I., Selbach M., Herrmann C., Wölfl S., Henrich K., Höfer T., Trumpp A. & Westermann F. (2022), Nature Cancer. 3, 4, p. 471-485
  • Context-specific effects of sequence elements on subcellular localization of linear and circular RNAs

    Authors: Ron M. & Ulitsky I. (2022), Nature Communications. 13, 1, 2481
  • Visual barcodes for clonal-multiplexing of live microscopy-based assays

    Authors: Kaufman T., Nitzan E., Firestein N., Ginzberg M. B., Iyengar S., Patel N., Ben-Hamo R., Porat Z., Hunter J., Hilfinger A., Rotter V., Kafri R. & Straussman R. (2022), Nature Communications. 13, 1, 2725
  • Strategies and foundations for scientific discovery in longitudinal studies of bipolar disorder

    Authors: McInnis M. G., Andreassen O. A., Andreazza A. C., Alon U., Berk M., Brister T., Burdick K. E., Cui D., Frye M., Leboyer M., Mitchell P. B., Merikangas K., Nierenberg A. A., Nurnberger J., Pham D., Vieta E., Yatham L. N. & Young A. H. (2022), Bipolar Disorders. 24, 5, p. 499-508
  • The spatiotemporal program of zonal liver regeneration following acute injury

    Authors: Ben-Moshe S., Veg T., Manco R., Dan S., Papinutti D., Lifshitz A., Kolodziejczyk A. A., Bahar Halpern K., Elinav E. & Itzkovitz S. (2022), Cell Stem Cell. 29, 6, p. 973-989.e10
  • Viruses inhibit TIR gcADPR signalling to overcome bacterial defence

    Authors: Leavitt A., Yirmiya E., Amitai G., Lu A., Garb J., Herbst E., Morehouse B. R., Hobbs S. J., Antine S. P., Sun Z. J., Kranzusch P. J. & Sorek R. (2022), Nature (London). 611, 7935, p. 326-331
  • Early antitumor activity of oral Langerhans cells is compromised by a carcinogen

    Authors: Saba Y., Aizenbud I., Matanes D., Koren N., Barel O., Zubeidat K., Capucha T., David E., Eli-Berchoer L., Stoitzner P., Wilensky A., Amit I., Czerninski R., Yona S. & Hovav A. (2022), Proceedings of the National Academy of Sciences of the United States of America. 119, 3, e211842411
  • Utilization of Host and Microbiome Features in Determination of Biological Aging

    Authors: Ratiner K., Abdeen S. K., Goldenberg K. & Elinav E. (2022), Microorganisms (Basel). 10, 3, 668
  • Mutant libraries reveal negative design shielding proteins from supramolecular self-assembly and relocalization in cells

    Authors: Garcia Seisdedos H., Levin T., Shapira G., Freud S. & Levy E. D. (2022), Proceedings of the National Academy of Sciences - PNAS. 119, 5, e210111711
  • DOP53 In-depth characterisation of the serum antibody epitope repertoire in Inflammatory Bowel Disease by high-throughput phage-displayed immunoprecipitation sequencing

    Authors: Bourgonje A. R., Andreu-Sánchez S., Vogl T., Hu S., Vich Vila A., Leviatan S., Kurilshikov A., Klompus S., Kalka I. N., van Dullemen H. M., Weinberger A., Visschedijk M. C., Festen E. A. M., Faber K. N., Wijmenga C., Dijkstra G., Segal E., Fu J., Zhernakova A. & Weersma R. K. (2022), Journal of Crohn's and Colitis. 16, Supplement_1, p. i100-i102
  • A late-stage assembly checkpoint of the human mitochondrial ribosome large subunit

    Authors: Rebelo-Guiomar P., Pellegrino S., Dent K. C., Sas-Chen A., Miller-Fleming L., Garone C., Van Haute L., Rogan J. F., Dinan A., Firth A. E., Andrews B., Whitworth A. J., Schwartz S., Warren A. J. & Minczuk M. (2022), Nature Communications. 13, 929
  • Nowcasting the spread of SARS-CoV-2

    Authors: Rossman H. & Segal E. (2022),
  • Fatal cytokine release syndrome by an aberrant FLIP/STAT3 axis

    Authors: Musiu C., Caligola S., Fiore A., Lamolinara A., Frusteri C., Del Pizzo F. D., De Sanctis F., Cane S., Adamo A., Hofer F., Barouni R. M., Grilli A., Zilio S., Serafini P., Tacconelli E., Donadello K., Gottin L., Polati E., Girelli D., Polidoro I., Iezzi P. A., Angelucci D., Capece A., Chen Y., Shi Z., Murray P. J., Chilosi M., Amit I., Bicciato S., Iezzi M., Bronte V. & Ugel S. (2022), Cell Death and Differentiation. 29, 2, p. 420-438
  • The dopamine circuit as a reward-taxis navigation system

    Authors: Karin O. & Alon U. (2022), PLoS Computational Biology. 18, 7, e1010340
  • An atlas of robust microbiome associations with phenotypic traits based on large-scale cohorts from two continents

    Authors: Rothschild D., Leviatan S., Hanemann A., Cohen Y., Weissbrod O. & Segal E. (2022), PLoS ONE. 17, 3 March, e0265756
  • Systematic analysis of membrane contact sites in Saccharomyces cerevisiae uncovers modulators of cellular lipid distribution

    Authors: Castro I. G., Shortill S. P., Dziurdzik S. K., Cadou A., Ganesan S., Valenti R., David Y., Davey M., Mattes C., Thomas F. B., Avraham R. E., Meyer H., Fadel A., Fenech E. J., Ernst R., Zaremberg V., Levine T. P., Stefan C., Conibear E. & Schuldiner M. (2022), eLife. 11, e74602
  • Evolution of binding preferences among whole-genome duplicated transcription factors

    Authors: Gera T., Jonas F., More R. & Barkai N. (2022), eLife. 11, e73225
  • Brain metastases: Not all tumors are created equal

    Authors: Kirschenbaum D. & Amit I. (2022), Neuron (Cambridge, Mass.). 110, 7, p. 1097-1099
  • Initial protection against SARS-CoV-2 omicron lineage infection in children and adolescents by BNT162b2 in Israel: an observational study

    Authors: Amir O., Goldberg Y., Mandel M., Bar-On Y. M., Bodenheimer O., Freedman L., Ash N., Alroy-Preis S., Huppert A. & Milo R. (2022), The Lancet Infectious Diseases. 23, 1, p. 67-73
  • Pls1 Is a Peroxisomal Matrix Protein with a Role in Regulating Lysine Biosynthesis

    Authors: David Y., Castro I. G., Yifrach E., Bibi C., Katawi E., Har-Shai D. Y., Brodsky S., Barkai N., Ravid T., Eisenstein M., Pietrokovski S., Schuldiner M. & Zalckvar E. (2022), Cells. 11, 9, 1426
  • Evolution of resistance to COVID-19 vaccination with dynamic social distancing

    Authors: Lobinska G., Pauzner A., Traulsen A., Pilpel Y. & Nowak M. (2022), Nature Human Behaviour. 6, 2, p. 193-206
  • Time-resolved single-cell RNA-seq using metabolic RNA labelling

    Authors: Erhard F., Saliba A., Lusser A., Toussaint C., Hennig T., Prusty B. K., Kirschenbaum D., Abadie K., Miska E. A., Friedel C. C., Amit I., Micura R. & Doelken L. (2022), Nature Reviews Methods Primers. 2, 1, 77
  • Risk factors for non-alcoholic fatty liver disease delineate the battlegrounds in optimizing disease prevention

    Authors: Spivak I. & Elinav E. (2022), Hepatobiliary surgery and nutrition. 11, 3, p. 492-494
  • IRF3 inhibits IFN-γ-mediated restriction of intracellular pathogens in macrophages independently of IFNAR

    Authors: Maciag K., Raychowdhury R., Smith K., Schneider A. M., Coers J., Mumbach M. R., Schwartz S. & Hacohen N. (2022), Journal of Leukocyte Biology. 112, 2, p. 257-271
  • Alzheimer’s disease modification mediated by bone marrow-derived macrophages via a TREM2-independent pathway in mouse model of amyloidosis

    Authors: Dvir-Szternfeld R., Castellani G., Arad M., Cahalon L., Colaiuta S. P., Keren-Shaul H., Croese T., Burgaletto C., Baruch K., Ulland T., Colonna M., Weiner A., Amit I. & Schwartz M. (2022), Nature Aging. 2, 1, p. 60-73
  • The intrinsic and extrinsic effects of TET proteins during gastrulation

    Authors: Cheng S., Mittnenzweig M., Mayshar Y., Lifshitz A., Dunjic M., Rais Y., Ben-Yair R., Gehrs S., Chomsky E., Mukamel Z., Rubinstein H., Schlereth K., Reines N., Orenbuch A., Tanay A. & Stelzer Y. (2022), Cell. 185, 17, p. 3169-3185.e20
  • A spatial perspective on bacteria in tumours

    Authors: Livyatan I. & Straussman R. (2022), Nature. 611, 7937, p. 674-675
  • Time-limited diets and the gut microbiota in cardiometabolic disease

    Authors: Ratiner K., Shapiro H., Goldenberg K. & Elinav E. (2022), Journal of Diabetes. 14, 6, p. 377-393
  • Protection following BNT162b2 booster in adolescents substantially exceeds that of a fresh 2-dose vaccine

    Authors: Amir O., Goldberg Y., Mandel M., Bar-On Y. M., Bodenheimer O., Ash N., Alroy-Preis S., Huppert A. & Milo R. (2022), Nature Communications. 13, 1971
  • Clinical efficacy of fecal microbial transplantation treatment in adults with moderate-to-severe atopic dermatitis

    Authors: Mashiah J., Karady T., Fliss-Isakov N., Sprecher E., Slodownik D., Artzi O., Samuelov L., Ellenbogen E., Godneva A., Segal E. & Maharshak N. (2022), Immunity, inflammation and disease. 10, 3, e570
  • Show your true color: Mammalian cell surface staining for tracking cellular identity in multiplexing and beyond

    Authors: Hassdenteufel S. & Schuldiner M. (2022), Current Opinion in Chemical Biology. 66, 102102
  • Systematic multi‐level analysis of an organelle proteome reveals new peroxisomal functions

    Authors: Yifrach E., Holbrook‐Smith D., Bürgi J., Othman A., Eisenstein M., Roermund C. W., Visser W., Tirosh A., Rudowitz M., Bibi C., Galor S., Weill U., Fadel A., Peleg Y., Erdmann R., Waterham H. R., Wanders R. J. A., Wilmanns M., Zamboni N., Schuldiner M. & Zalckvar E. (2022), Molecular Systems Biology. 18, 9, e11186
  • Metacell-2: a divide-and-conquer metacell algorithm for scalable scRNA-seq analysis

    Authors: Ben-Kiki O., Bercovich A., Lifshitz A. & Tanay A. (2022), Genome Biology. 23, 1, 100
  • A conserved viral amphipathic helix governs the replication site-specific membrane association

    Authors: Sathanantham P., Zhao W., He G., Austin M., Fenech E., Diaz A., Schuldiner M. & Wang X. (2022), PLoS Pathogens. 18, 9, e1010752
  • Multiple phage resistance systems inhibit infection via SIR2-dependent NAD+ depletion

    Authors: Garb J., Lopatina A., Bernheim A., Zaremba M., Siksnys V., Melamed S., Leavitt A., Millman A., Amitai G. & Sorek R. (2022), Nature Microbiology. 7, 11, p. 1849-1856
  • New Approaches to Profile the Microbiome for Treatment of Neurodegenerative Disease

    Authors: Elmaleh D. R., Downey M. A., Kundakovic L., Wilkinson J. E., Neeman Z. & Segal E. (2022), Handbook of Microbiome and Gut-Brain-Axis in Alzheimer's Disease. Pasinetti G. M. (eds.). p. 117-145
  • A similarity-based method for predicting enzymatic functions in yeast uncovers a new AMP hydrolase

    Authors: Cohen N., Kahana A. & Schuldiner M. (2022), Journal of Molecular Biology. 434, 7, 167478
  • A spatial vaccination strategy to reduce the risk of vaccine-resistant variants

    Authors: Zhang X., Lobinska G., Feldman M., Dekel E., Nowak M. A., Pilpel Y., Pauzner Y., Barzel B. & Pauzner A. (2022), PLoS Computational Biology. 18, 8, e1010391
  • Severe Dysbiosis and Specific Haemophilus and Neisseria Signatures as Hallmarks of the Oropharyngeal Microbiome in Critically Ill Coronavirus Disease 2019 (COVID-19) Patients

    Authors: de Castilhos J., Zamir E., Hippchen T., Rohrbach R., Schmidt S., Hengler S., Schumacher H., Neubauer M., Kunz S., Mueller-Esch T., Hiergeist A., Gessner A., Khalid D., Gaiser R., Cullin N., Papagiannarou S. M., Beuthien-Baumann B., Kraemer A., Bartenschlager R., Jaeger D., Mueller M., Herth F., Duerschmied D., Schneider J., Schmid R. M., Eberhardt J. F., Khodamoradi Y., Vehreschild M. J. G. T., Teufel A., Ebert M. P., Hau P., Salzberger B., Schnitzler P., Poeck H., Elinav E., Merle U. & Stein-Thoeringer C. K. (2022), Clinical Infectious Diseases. 75, 1, p. E1063-E1071, ciab902
  • Genome-wide CRISPR screens identify GATA6 as a proviral host factor for SARS-CoV-2 via modulation of ACE2

    Authors: Israeli M., Finkel Y., Yahalom-Ronen Y., Paran N., Chitlaru T., Israeli O., Cohen-Gihon I., Aftalion M., Falach R., Rotem S., Elia U., Nemet I., Kliker L., Mandelboim M., Beth-Din A., Israely T., Cohen O., Stern-Ginossar N. & Bercovich-Kinori A. (2022), Nature Communications. 13, 2237
  • Estimating disease severity of Omicron and Delta SARS-CoV-2 infections

    Authors: Sigal A., Milo R. & Jassat W. (2022), Nature reviews. Immunology. 22, p. 267-269
  • A unified statistical potential reveals that amino acid stickiness governs nonspecific recruitment of client proteins into condensates

    Authors: Villegas J. A. & Levy E. D. (2022), Protein Science. 31, 7, e4361
  • Rtt109 slows replication speed by histone N-terminal acetylation

    Authors: Frenkel N., Jonas F., Carmi M., Yaakov G. & Barkai N. (2021), Genome Research. 31, 3, p. 426-435
  • Evidence for cutaneous dysbiosis in dystrophic epidermolysis bullosa

    Authors: Bar J., Sarig O., Lotan-Pompan M., Dassa B., Miodovnik M., Weinberger A., Sprecher E., Segal E. & Samuelov L. (2021), Clinical and Experimental Dermatology. 46, 7, p. 1223-1229
  • A single-embryo, single-cell time-resolved model for mouse gastrulation

    Authors: Mittnenzweig M., Mayshar Y., Cheng S., Ben Yair R., Hadas R., Rais Y., Chomsky E., Reines N., Uzonyi A., Lumerman L., Lifshitz A., Mukamel Z., Orenbuch A. H., Tanay A. & Stelzer Y. (2021), Cell. 184, 11, p. 2825-2842.e22
  • The microbiome and human cancer

    Authors: Sepich-Poore G. D., Zitvogel L., Straussman R., Hasty J., Wargo J. A. & Knight R. (2021), Science. 371, 6536, eabc4552
  • ITN-VIROINF: Understanding (Harmful) Virus-Host Interactions by Linking Virology and Bioinformatics

    Authors: Goettsch W., Beerenwinkel N., Deng L., Dölken L., Dutilh B. E., Erhard F., Kaderali L., von Kleist M., Marquet R., Matthijnssens J., McCallin S., McMahon D., Rattei T., Van Rij R. P., Robertson D. L., Schwemmle M., Stern-Ginossar N. & Marz M. (2021), Viruses. 13, 5, 766
  • Comprehensive Gene Expression Analysis Detects Global Reduction of Proteasome Subunits in Schizophrenia

    Authors: Hertzberg L., Maggio N., Muler I., Yitzhaky A., Majer M., Haroutunian V., Zuk O., Katsel P., Domany E. & Weiser M. (2021), Schizophrenia Bulletin. 47, 3, p. 785-795
  • Remembering past infections: training exercise for gut microbes

    Authors: Nobs S. P. & Elinav E. (2021),
  • SARS-CoV-2 antibody testing for estimating COVID-19 prevalence in the population

    Authors: Vogl T., Leviatan S. & Segal E. (2021), Cell Reports Medicine. 2, 2, 100191
  • TP53 missense mutations in PDAC are associated with enhanced fibrosis and an immunosuppressive microenvironment

    Authors: Maddalena M., Mallel G., Nataraj N. B., Shreberk-Shaked M., Hassin O., Mukherjee S., Arandkar S., Rotkopf R., Kapsack A., Lambiase G., Pellegrino B., Ben-Isaac E., Golani O., Addadi Y., Hajaj E., Eilam R., Straussman R., Yarden Y., Lotem M. & Oren M. (2021), Proceedings of the National Academy of Sciences. 118, 23, e202563111
  • Interleukin-6 produced by enteric neurons regulates the number and phenotype of microbe-responsive regulatory T cells in the gut

    Authors: Yan Y., Ramanan D., Rozenberg M., McGovern K., Rastelli D., Vijaykumar B., Yaghi O., Voisin T., Mosaheb M., Chiu I., Itzkovitz S., Rao M., Mathis D. & Benoist C. (2021), Immunity (Cambridge, Mass.). 54, 3, p. 499-513.e5
  • Structured elements drive extensive circular RNA translation

    Authors: Chen C. K., Cheng R., Demeter J., Chen J., Weingarten-Gabbay S., Jiang L., Snyder M. P., Weissman J. S., Segal E., Jackson P. K. & Chang H. Y. (2021), Molecular Cell. 81, 20, p. 4300-4318.e13
  • An opponent process for alcohol addiction based on changes in endocrine gland mass

    Authors: Karin O., Raz M. & Alon U. (2021), iScience. 24, 3, 102127
  • Gut microbiome and its potential link to personalized nutrition

    Authors: Kviatcovsky D., Zheng D. & Elinav E. (2021), Current Opinion in Physiology. 22, 100439
  • Estimating heritability of glycaemic response to metformin using nationwide electronic health records and population-sized pedigree

    Authors: Kalka I. N., Gavrieli A., Shilo S., Rossman H., Artzi N. S., Yacovzada N. & Segal E. (2021), Communications Medicine. 1, 1, 55
  • Deciphering the state of immune silence in fatal COVID-19 patients

    Authors: Bost P., De Sanctis F., Canè S., Ugel S., Donadello K., Castellucci M., Eyal D., Fiore A., Anselmi C., Barouni R. M., Trovato R., Caligola S., Lamolinara A., Iezzi M., Facciotti F., Mazzariol A., Gibellini D., De Nardo P., Tacconelli E., Gottin L., Polati E., Schwikowski B., Amit I. & Bronte V. (2021), Nature Communications. 12, 1, 1428
  • Identification of bacteria-derived HLA-bound peptides in melanoma

    Authors: Kalaora S., Nagler A., Nejman D., Alon M., Barbolin C., Barnea E., Ketelaars S. L. C., Cheng K., Vervier K., Shental N., Bussi Y., Rotkopf R., Levy R., Benedek G., Trabish S., Dadosh T., Levin-Zaidman S., Geller L. T., Wang K., Greenberg P., Yagel G., Peri A., Fuks G., Bhardwaj N., Reuben A., Hermida L., Johnson S. B., Galloway-Peña J. R., Shropshire W. C., Bernatchez C., Haymaker C., Arora R., Roitman L., Eilam R., Weinberger A., Lotan-Pompan M., Lotem M., Levin Y., Lawley T. D., Adams D. J., Levesque M. P., Besser M. J., Schachter J., Golani O., Segal E., Ruppin E., Kvistborg P., Peterson S. N., Wargo J. A., Straussman R. & Samuels Y. (2021), Nature (London). 592, 7852, p. 138-143
  • Generation and timing of graded responses to morphogen gradients

    Authors: Carmon S., Jonas F. R. H., Barkai N., Schejter E. & Shilo B. (2021), Development. 148, 24, dev199991
  • The gut microbiome: a key player in the complexity of amyotrophic lateral sclerosis (ALS)

    Authors: Boddy S. L., Giovannelli I., Sassani M., Cooper-Knock J., Snyder M. P., Segal E., Elinav E., Barker L. A., Shaw P. J. & McDermott C. J. (2021), BMC Medicine. 19, 1, 13
  • Heads or tails: histone tail clipping regulates macrophage activity

    Authors: Kragesteen B. K. & Amit I. (2021), Nature Immunology. 22, p. 678-680
  • In the Beginning There Were n Agents: Founding and Amending a Constitution

    Authors: Abramowitz B., Shapiro E. & Talmon N. (2021), ADT 2021: Algorithmic Decision Theory. Vol. 13023. p. 119-131
  • Identification and characterization of key long non-coding RNAs in the mouse cochlea

    Authors: Koffler-Brill T., Taiber S., Anaya A., Bordeynik-Cohen M., Rosen E., Kolla L., Messika-Gold N., Elkon R., Kelley M. W., Ulitsky I. & Avraham K. B. (2021), RNA Biology. 18, 8, p. 1160-1169
  • Robust, coherent and synchronized circadian clock-controlled oscillations along Anabaena filaments

    Authors: Arbel-Goren R., Buonfiglio V., Di Patti F., Camargo S., Zhitnitsky A., Valladares A., Flores E., Herrero A., Fanelli D. & Stavans J. (2021), eLife. 10, e64348
  • Widespread use of unconventional targeting signals in mitochondrial ribosome proteins

    Authors: Bykov Y. S., Flohr T., Boos F., Zung N., Herrmann J. M. & Schuldiner M. (2021), The EMBO Journal. 41, 1, e109519
  • Speed–Specificity Trade-Offs in the Transcription Factors Search for Their Genomic Binding Sites

    Authors: Jana T., Brodsky S. & Barkai N. (2021), Trends in Genetics. 37, 5, p. 421-432
  • Deciphering the principles of the RNA editing code via large-scale systematic probing

    Authors: Uzonyi A., Nir R., Shliefer O., Stern-Ginossar N., Antebi Y., Stelzer Y., Levanon E. Y. & Schwartz S. (2021), Molecular Cell. 81, 11, p. 2374-2387
  • Personalized Postprandial Glucose Response-Targeting Diet Versus Mediterranean Diet for Glycemic Control in Prediabetes

    Authors: Ben-Yacov O., Godneva A., Rein M., Shilo S., Kolobkov D., Koren N., Cohen Dolev N., Travinsky Shmul T., Wolf B. C., Kosower N., Sagiv K., Lotan-Pompan M., Zmora N., Weinberger A., Elinav E. & Segal E. (2021), Diabetes Care. 44, 9, p. 1980-1991
  • Multi-tissue single-cell analysis deconstructs the complex programs of mouse natural killer and type 1 innate lymphoid cells in tissues and circulation

    Authors: McFarland A. P., Yalin A., Wang S., Cortez V. S., Landsberger T., Sudan R., Peng V., Miller H. L., Ricci B., David E., Faccio R., Amit I. & Colonna M. (2021), Immunity (Cambridge, Mass.). 54, 6, p. 1320-1337.e4
  • The ribosome epitranscriptome: inert-or a platform for functional plasticity?

    Authors: Georgeson J. & Schwartz S. (2021), RNA (Cambridge). 27, 11, p. 1293-1301
  • Potential role of indolelactate and butyrate in multiple sclerosis revealed by integrated microbiome-metabolome analysis

    Authors: Levi I., Gurevich M., Perlman G., Magalashvili D., Menascu S., Bar N., Godneva A., Zahavi L., Chermon D., Kosower N., Wolf B. C., Malka G., Lotan-Pompan M., Weinberger A., Yirmiya E., Rothschild D., Leviatan S., Tsur A., Didkin M., Dreyer S., Eizikovitz H., Titngi Y., Mayost S., Sonis P., Dolev M., Stern Y., Achiron A. & Segal E. (2021), Cell Reports Medicine. 2, 4, 100246
  • Highly conserved and cis-acting lncRNAs produced from paralogous regions in the center of HOXA and HOXB clusters in the endoderm lineage

    Authors: Degani N., Lubelsky Y., Perry R. B., Ainbinder E. & Ulitsky I. (2021), PLoS Genetics. 17, 7, e1009681
  • Democratic Forking: Choosing Sides with Social Choice

    Authors: Abramowitz B., Elkind E., Grossi D., Shapiro E. & Talmon N. (2021), Algorithmic Decision Theory. p. 341-356
  • Hospital load and increased COVID-19 related mortality in Israel

    Authors: Rossman H., Meir T., Somer J., Shilo S., Gutman R., Ben Arie A., Segal E., Shalit U. & Gorfine M. (2021), Nature Communications. 12, 1, 1904
  • Hormone seasonality in medical records suggests circannual endocrine circuits

    Authors: Tendler A., Bar A., Mendelsohn-cohen N., Karin O., Korem Kohanim Y., Maimon L., Milo T., Raz M., Mayo A., Tanay A. & Alon U. (2021), Proceedings of the National Academy of Sciences. 118, 7, 2003926118
  • Cross-reactive antibodies against human coronaviruses and the animal coronavirome suggest diagnostics for future zoonotic spillovers

    Authors: Klompus S., Leviatan S., Vogl T., Mazor R., Kalka I., Stoler-Barak L., Nathan N., Peres A., Moss L., Godneva A., Kagan Ben Tikva S., Shinar E., Dvashi H. C., Gabizon R., London N., Diskin R., Yaari G., Weinberger A., Shulman Z. & Segal E. (2021), Science immunology. 6, 61, eabe9950
  • 10 K: a large-scale prospective longitudinal study in Israel

    Authors: Shilo S., Bar N., Keshet A., Talmor-Barkan Y., Rossman H., Godneva A., Aviv Y., Edlitz Y., Reicher L., Kolobkov D., Wolf B. C., Lotan-Pompan M., Levi K., Cohen O., Saranga H., Weinberger A. & Segal E. (2021), European Journal of Epidemiology. 36, 11, p. 1187-1194
  • Histone Degradation by the Proteasome Regulates Chromatin and Cellular Plasticity

    Authors: Shmueli M. D., Sheban D., Eisenberg-Lerner A. & Merbl Y. (2021), The FEBS journal. 289, 12, p. 3304-3316
  • Liver zonation

    Authors: Manco R. & Itzkovitz S. (2021),
  • Distinct extracellular–matrix remodeling events precede symptoms of inflammation

    Authors: Shimshoni E., Adir I., Afik R., Solomonov I., Shenoy A., Adler M., Puricelli L., Sabino F., Savickas S., Mouhadeb O., Gluck N., Fishman S., Werner L., Salame T., Shouval D. S., Varol C., auf dem Keller U., Podestà A., Geiger T., Milani P., Alon U. & Sagi I. (2021), Matrix Biology. 96, p. 47-68
  • The distribution of cellular turnover in the human body

    Authors: Sender R. & Milo R. (2021), Nature Medicine. 27, 1, p. 45-48
  • The total number and mass of SARS-CoV-2 virions

    Authors: Sender R., Bar-On Y. M., Gleizer S., Bernshtein B., Flamholz A., Phillips R. & Milo R. (2021), Proceedings of the National Academy of Sciences - PNAS. 118, 25, e202481511
  • Multiplexed profiling facilitates robust m6A quantification at site, gene and sample resolution

    Authors: Dierks D., Garcia-Campos M. A., Uzonyi A., Safra M., Edelheit S., Rossi A., Sideri T., Varier R. A., Brandis A., Stelzer Y., van Werven F., Scherz-Shouval R. & Schwartz S. (2021), Nature Methods. 18, 9, p. 1060-1067
  • Anti-tumour immunity induces aberrant peptide presentation in melanoma

    Authors: Bartok O., Pataskar A., Nagel R., Laos M., Goldfarb E., Hayoun D., Levy R., Körner P., Kreuger I. Z. M., Champagne J., Zaal E. A., Bleijerveld O. B., Huang X., Kenski J., Wargo J., Brandis A., Levin Y., Mizrahi O., Alon M., Lebon S., Yang W., Nielsen M. M., Stern-Ginossar N., Altelaar M., Berkers C. R., Geiger T., Peeper D. S., Olweus J., Samuels Y. & Agami R. (2021), Nature. 590, 7845, p. 332-337
  • Harnessing smartphones to personalize nutrition in a time of global pandemic

    Authors: Zmora N. & Elinav E. (2021), Nutrients. 13, 2, 422
  • Senescent cell accumulation mechanisms inferred from parabiosis

    Authors: Karin O. & Alon U. (2021), GeroScience. 43, p. 329-341
  • Efficient acquisition of tens of thousands of short tandem repeats in single-cell whole-genome-amplified DNA

    Authors: Tao L., Marx Z., Raz O. & Shapiro E. (2021), STAR Protocols. 2, 4, 100828
  • COVID-19 dynamics after a national immunization program in Israel

    Authors: Rossman H., Shilo S., Meir T., Gorfine M., Shalit U. & Segal E. (2021), Nature Medicine. 27, p. 1055-1061
  • A spatial vascular transcriptomic, proteomic, and phosphoproteomic atlas unveils an angiocrine Tie–Wnt signaling axis in the liver

    Authors: Inverso D., Shi J., Lee K. H., Jakab M., Ben-Moshe S., Kulkarni S. R., Schneider M., Wang G., Komeili M., Vélez P. A., Riedel M., Spegg C., Ruppert T., Schaeffer-Reiss C., Helm D., Singh I., Boutros M., Chintharlapalli S., Heikenwalder M., Itzkovitz S. & Augustin H. G. (2021), Developmental Cell. 56, 11, p. 1677-1693
  • mito-Ψ-Seq: A High-Throughput Method for Systematic Mapping of Pseudouridine Within Mitochondrial RNA

    Authors: Sas-Chen A., Nir R. & Schwartz S. (2021), Mitochondrial Gene Expression. Rorbach J. & Minczuk M. (eds.). p. 103-115
  • Clump sequencing exposes the spatial expression programs of intestinal secretory cells

    Authors: Manco R., Averbukh I., Porat Z., Bahar Halpern K., Amit I. & Itzkovitz S. (2021), Nature Communications. 12, p. -, 3074
  • Population-wide diversity and stability of serum antibody epitope repertoires against human microbiota

    Authors: Thomas V., Shelley K., Sigal L., N K. I., Adina W., Cisca W., Jingyuan F., Alexandra Z., K W. R. & Segal E. (2021), Nature Medicine. 27, 8, p. 1442-1450
  • A stony coral cell atlas illuminates the molecular and cellular basis of coral symbiosis, calcification, and immunity

    Authors: Levy S., Elek A., Grau-Bové X., Menéndez-Bravo S., Iglesias M., Tanay A., Mass T. & Sebé-Pedrós A. (2021), Cell. 184, 11, p. 2973-2987.e18
  • The Fast and the Furious: Golgi Contact Sites

    Authors: David Y., Castro I. G. & Schuldiner M. (2021), Contact. 4, p. 1-15
  • Anosmia, ageusia, and other COVID-19-like symptoms in association with a positive SARS-CoV-2 test, across six national digital surveillance platforms: an observational study

    Authors: Sudre C. H., Keshet A., Graham M. S., Joshi A. D., Shilo S., Rossman H., Murray B., Molten E., Klaser K., Canas L. D., Antonelli M., Nguyen L. H., Drew D. A., Modat M., Pujol J. C., Ganesh S., Wolf J., Meir T., Chan A. T., Steves C. J., Spector T. D., Brownstein J. S., Segal E., Ourselin S. & Astley C. M. (2021), The Lancet. Digital health. 3, 9, p. e577-e586
  • The hygiene hypothesis, the COVID pandemic, and consequences for the human microbiome

    Authors: Finlay B. B., Amato K. R., Azad M., Blaser M. J., Bosch T. C., Chu H., Dominguez-Bello M. G., Ehrlich S. D., Elinav E., Geva-Zatorsky N., Gros P., Guillemin K., Keck F., Korem T., McFall-Ngai M. J., Melby M. K., Nichter M., Pettersson S., Poinar H., Rees T., Tropini C., Zhao L. & Giles-Vernick T. (2021), Proceedings of the National Academy of Sciences of the United States of America. 118, 6, e201021711
  • MIR503HG Loss Promotes Endothelial-to-Mesenchymal Transition in Vascular Disease

    Authors: Monteiro J. P., Rodor J., Caudrillier A., Scanlon J. P., Spiroski A., Dudnakova T., Pflüger-Müller B., Shmakova A., von Kriegsheim A., Deng L., Taylor R. S., Wilson-Kanamori J. R., Chen S., Stewart K., Thomson A., Mitić T., McClure J. D., Iyinikkel J., Hadoke P. W., Denby L., Bradshaw A. C., Caruso P., Morrell N. W., Kovacic J. C., Ulitsky I., Henderson N. C., Caporali A., Leisegang M. S., Brandes R. P. & Baker A. H. (2021), Circulation Research. 128, 8, p. 1173-1190
  • New Approaches to Profile the Microbiome for Treatment of Neurodegenerative Disease

    Authors: Elmaleh D. R., Downey M. A., Kundakovic L., Wilkinson J. E., Neeman Z. & Segal E. (2021), Journal of Alzheimer's Disease. 82, 4, p. 1373-1401
  • A Prediction Model to Prioritize Individuals for a SARS-CoV-2 Test Built from National Symptom Surveys

    Authors: Shoer S., Karady T., Keshet A., Shilo S., Rossman H., Gavrieli A., Meir T., Lavon A., Kolobkov D., Kalka I., Godneva A., Cohen O., Kariv A., Hoch O., Zer-Aviv M., Castel N., Sudre C., Zohar A. E., Irony A., Spector T., Geiger B., Hizi D., Shalev V., Balicer R. & Segal E. (2021), Med. 2, 2, p. 196-208.e4
  • Principles of signaling pathway modulation for enhancing human naive pluripotency induction

    Authors: Bayerl J., Ayyash M., Shani T., Manor Y. S., Gafni O., Massarwa R., Kalma Y., Aguilera-Castrejon A., Zerbib M., Amir H., Sheban D., Geula S., Mor N., Weinberger L., Naveh Tassa S., Krupalnik V., Oldak B., Livnat N., Tarazi S., Wildschutz E., Tawil S., Ashouokhi S., Lasman L., Rotter V., Hanna S., Ben-Yosef D., Novershtern N., Viukov S. & Hanna J. H. (2021), Cell Stem Cell. 28, 9, p. 1549-1565.e12
  • Inefficient splicing curbs noncoding RNA transcription

    Authors: Gil N. & Ulitsky I. (2021), Nature Structural & Molecular Biology. 28, 4, p. 327-328
  • A treasure trove of molecular scissors: Ancestral RNA-guided nucleases greatly expand the toolbox for gene editing

    Authors: Rousset F. & Sorek R. (2021),
  • Machine learning in clinical decision making

    Authors: Adlung L., Cohen Y., Mor U. & Elinav E. (2021), Med. 2, 6, p. 642-665
  • Antiviral activity of bacterial TIR domains via immune signalling molecules

    Authors: Ofir G., Herbst E., Baroz M., Cohen D., Millman A., Doron S., Tal N., Malheiro D. B. A., Malitsky S., Amitai G. & Sorek R. (2021), Nature (London). 600, 7887, p. 116-120
  • Quantitative profiling of pseudouridylation dynamics in native RNAs with nanopore sequencing

    Authors: Begik O., Lucas M. C., Pryszcz L. P., Ramirez J. M., Medina R., Milenkovic I., Cruciani S., Liu H., Vieira H. G. S., Sas-Chen A., Mattick J. S., Schwartz S. & Novoa E. M. (2021), Nature biotechnology. 39, 10, p. 1278-1291
  • Insulin is expressed by enteroendocrine cells during human fetal development

    Authors: Egozi A., Llivichuzhca-Loja D., McCourt B. T., Bahar Halpern K., Farack L., An X., Wang F., Chen K., Konnikova L. & Itzkovitz S. (2021), Nature Medicine. 27, 12, p. 2104-2107
  • Stress-related emotional and behavioural impact following the first COVID-19 outbreak peak

    Authors: Benjamin A., Kuperman Y., Eren N., Rotkopf R., Amitai M., Rossman H., Shilo S., Meir T., Keshet A., Nuttman-Shwartz O., Segal E. & Chen A. (2021), Molecular Psychiatry. 26, 11, p. 6149-6158
  • Post-ER degradation of misfolded GPI-anchored proteins is linked with microautophagy

    Authors: Lemus L., Matić Z., Gal L., Fadel A., Schuldiner M. & Goder V. (2021), Current Biology. 31, p. 1-13
  • Temporal fluctuations in chemotaxis gain implement a simulated-tempering strategy for efficient navigation in complex environments

    Authors: Karin O. & Alon U. (2021), iScience. 24, 7, p. 102796, 102796
  • The GUL-1 Protein Binds Multiple RNAs Involved in Cell Wall Remodeling and Affects the MAK-1 Pathway in Neurospora crassa

    Authors: Herold I., Zolti A., Garduño-Rosales M., Wang Z., López-Giráldez F., Mouriño-Pérez R. R., Townsend J. P., Ulitsky I. & Yarden O. (2021), Frontiers in Fungal Biology. 2, 672696
  • Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs

    Authors: Cohen N., Massalha H., Ben-Moshe S., Egozi A., Rozenberg M., Bahar Halpern K. & Itzkovitz S. (2021), PLoS Biology. 19, 10, e3001214
  • A 3D system to model human pancreas development and its reference single-cell transcriptome atlas identify signaling pathways required for progenitor expansion

    Authors: Gonçalves C. A., Larsen M., Jung S., Stratmann J., Nakamura A., Leuschner M., Hersemann L., Keshara R., Perlman S., Lundvall L., Thuesen L. L., Hare K. J., Amit I., Jørgensen A., Kim Y. H., del Sol A. & Grapin-Botton A. (2021), Nature Communications. 12, 3144
  • Designer fibre meals sway human gut microbes

    Authors: Leshem A. & Elinav E. (2021), Nature (London). 595, 7865, p. 32-34
  • “Structuromics”: another step toward a holistic view of the cell

    Authors: Levy E. D. & Vogel C. (2021), Cell. 184, 2, p. 301-303
  • Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences

    Authors: Ross C. J., Rom A., Spinrad A., Gelbard-Solodkin D., Degani N. & Ulitsky I. (2021), Genome Biology. 22, 1, 29
  • Single cell biology—a Keystone Symposia report

    Authors: Cable J., Elowitz M. B., Domingos A. I., Habib N., Itzkovitz S., Hamidzada H., Balzer M. S., Yanai I., Liberali P., Whited J., Streets A., Cai L., Stergachis A. B., Hong C. K. Y., Keren L., Guilliams M., Alon U., Shalek A. K., Hamel R., Pfau S. J., Raj A., Quake S. R., Zhang N. R., Fan J., Trapnell C., Wang B., Greenwald N. F., Vento-Tormo R., Santos S. D., Spencer S. L., Garcia H. G., Arekatla G., Gaiti F., Arbel-Goren R., Rulands S., Junker J. P., Klein A. M., Morris S. A., Murray J. I., Galloway K. E., Ratz M. & Romeike M. (2021), Annals of the New York Academy of Sciences. 1506, 1, p. 74-97
  • Microbial exposure during early human development primes fetal immune cells

    Authors: Mishra A., Lai G. C., Yao L. J., Aung T. T., Shental N., Rotter-Maskowitz A., Shepherdson E., Singh G. S. N., Pai R., Shanti A., Wong R. M. M., Lee A., Khyriem C., Dutertre C. A., Chakarov S., Srinivasan K., Shadan N. B., Zhang X., Khalilnezhad S., Cottier F., Tan A. S. M., Low G., Chen P., Fan Y., Hor P. X., Lee A. K. M., Choolani M., Vermijlen D., Sharma A., Fuks G., Straussman R., Pavelka N., Malleret B., McGovern N., Albani S., Chan J. K. Y. & Ginhoux F. (2021), Cell. 184, 13, p. 3394-3409.e20
  • Conflicting and ambiguous names of overlapping ORFs in the SARS-CoV-2 genome: A homology-based resolution

    Authors: Jungreis I., Nelson C. W., Ardern Z., Finkel Y., Krogan N. J., Sato K., Ziebuhr J., Stern-Ginossar N., Pavesi A., Firth A. E., Gorbalenya A. E. & Kellis M. (2021), Virology (New York, N.Y.). 558, p. 145-151
  • Maximization of information transmission influences selection of native phosphorelay architectures

    Authors: Alves R., Salvadó B., Milo R., Vilaprinyo E. & Sorribas A. (2021), PeerJ (San Francisco, CA). 9, e11558
  • Building a Sybil-Resilient Digital Community Utilizing Trust-Graph Connectivity

    Authors: Poupko O., Shahaf G., Shapiro E. & Talmon N. (2021), IEEE/ACM Transactions on Networking. 29, 5, p. 1-13
  • Dietary suppression of MHC class II expression in intestinal epithelial cells enhances intestinal tumorigenesis

    Authors: Beyaz S., Chung C., Mou H., Bauer-Rowe K. E., Xifaras M. E., Ergin I., Dohnalova L., Biton M., Shekhar K., Eskiocak O., Papciak K., Ozler K., Almeqdadi M., Yueh B., Fein M., Annamalai D., Valle-Encinas E., Erdemir A., Dogum K., Shah V., Alici-Garipcan A., Meyer H. V., Özata D. M., Elinav E., Kucukural A., Kumar P., McAleer J. P., Fox J. G., Thaiss C. A., Regev A., Roper J., Orkin S. H. & Yilmaz Ö. H. (2021), Cell Stem Cell. 28, 11, p. 1922-1935.e5
  • NASH limits anti-tumour surveillance in immunotherapy-treated HCC

    Authors: Pfister D., Núñez N. G., Pinyol R., Govaere O., Pinter M., Szydlowska M., Gupta R., Qiu M., Deczkowska A., Weiner A., Müller F., Sinha A., Friebel E., Engleitner T., Lenggenhager D., Moncsek A., Heide D., Stirm K., Kosla J., Kotsiliti E., Leone V., Dudek M., Yousuf S., Inverso D., Singh I., Teijeiro A., Castet F., Montironi C., Haber P. K., Tiniakos D., Bedossa P., Cockell S., Younes R., Vacca M., Marra F., Schattenberg J. M., Allison M., Bugianesi E., Ratziu V., Pressiani T., D’Alessio A., Personeni N., Rimassa L., Daly A. K., Scheiner B., Pomej K., Kirstein M. M., Vogel A., Peck-Radosavljevic M., Hucke F., Finkelmeier F., Waidmann O., Trojan J., Schulze K., Wege H., Koch S., Weinmann A., Bueter M., Rössler F., Siebenhüner A., De Dosso S., Mallm J. P., Umansky V., Jugold M., Luedde T., Schietinger A., Schirmacher P., Emu B., Augustin H. G., Billeter A., Müller-Stich B., Kikuchi H., Duda D. G., Kütting F., Waldschmidt D. T., Ebert M. P., Rahbari N., Mei H. E., Schulz A. R., Ringelhan M., Malek N., Spahn S., Bitzer M., Ruiz de Galarreta M., Lujambio A., Dufour J. F., Marron T. U., Kaseb A., Kudo M., Huang Y. H., Djouder N., Wolter K., Zender L., Marche P. N., Decaens T., Pinato D. J., Rad R., Mertens J. C., Weber A., Unger K., Meissner F., Roth S., Jilkova Z. M., Claassen M., Anstee Q. M., Amit I., Knolle P., Becher B., Llovet J. M. & Heikenwalder M. (2021), Nature (London). 592, 7854, p. 450-456
  • Order through disorder: The role of intrinsically disordered regions in transcription factor binding specificity

    Authors: Brodsky S., Jana T. & Barkai N. (2021), Current Opinion in Structural Biology. 71, p. 110-115
  • Commensal inter-bacterial interactions shaping the microbiota

    Authors: Kern L., Abdeen S. K., Kolodziejczyk A. A. & Elinav E. (2021), Current Opinion in Microbiology. 63, p. 158-171
  • Abundance Imparts Evolutionary Constraints of Similar Magnitude on the Buried, Surface, and Disordered Regions of Proteins

    Authors: Dubreuil B. & Levy E. D. (2021), Frontiers in Molecular Biosciences. 8, 626729
  • Single-cell analysis of regions of interest (SCARI) using a photosensitive tag

    Authors: van der Leun A. M., Hoekstra M. E., Reinalda L., Scheele C. L. G. J., Toebes M., van de Graaff M. J., Chen L. Y. Y., Li H., Bercovich A., Lubling Y., David E., Thommen D. S., Tanay A., van Rheenen J., Amit I., van Kasteren S. I. & Schumacher T. N. (2021), Nature Chemical Biology. 17, 11, p. 1139-1147
  • Benchmarked approaches for reconstruction of in vitro cell lineages and in silico models of C. elegans and M. musculus developmental trees

    Authors: Gong W., Granados A. A., Hu J., Jones M. G., Raz O., Salvador-Martínez I., Zhang H., Chow K. K., Kwak I., Retkute R., Prusokas A., Prusokas A., Khodaverdian A., Zhang R., Rao S., Wang R., Rennert P., Saipradeep V. G., Sivadasan N., Rao A., Joseph T., Srinivasan R., Peng J., Han L., Shang X., Garry D. J., Yu T., Chung V., Mason M., Liu Z., Guan Y., Yosef N., Shendure J., Telford M. J., Shapiro E., Elowitz M. B. & Meyer P. (2021), Cell Systems. 12, 8, p. 810-826.e4
  • Prediction of Childhood Obesity from Nationwide Health Records

    Authors: Rossman H., Shilo S., Barbash-Hazan S., Artzi N. S., Hadar E., Balicer R. D., Feldman B., Wiznitzer A. & Segal E. (2021), Journal of Pediatrics. 233, p. 132-140.e1
  • Protection of BNT162b2 Vaccine Booster against Covid-19 in Israel

    Authors: Bar-On Y. M., Goldberg Y., Mandel M., Bodenheimer O., Freedman L., Kalkstein N., Mizrahi B., Alroy-Preis S., Ash N., Milo R. & Huppert A. (2021), The New England journal of medicine. 385, 15, p. 1393-1400
  • The ER protein Ema19 facilitates the degradation of nonimported mitochondrial precursor proteins

    Authors: Laborenz J., Bykov Y. S., Knöringer K., Räschle M., Filker S., Prescianotto-Baschong C., Spang A., Tatsuta T., Langer T., Storchová Z., Schuldiner M. & Herrmann J. M. (2021), Molecular Biology of the Cell. 32, 8, p. 664-674
  • The long-term genetic stability and individual specificity of the human gut microbiome

    Authors: Chen L., Wang D., Garmaeva S., Kurilshikov A. & Segal E. (2021), Cell. 184, 9, p. 2302-2315.e12
  • Host succinate is an activation signal for Salmonella virulence during intracellular infection

    Authors: Rosenberg G., Yehezkel D., Hoffman D., Ciolli Mattioli C., Fremder M., Ben-Arosh H., Vainman L., Nissani N., Hen-Avivi S., Brenner S., Itkin M., Malitsky S., Ohana E., Ben-Moshe N. B. & Avraham R. (2021), Science. 371, 6527, p. 400-405
  • Quantitative nucleotide resolution profiling of RNA cytidine acetylation by ac4C-seq

    Authors: Thalalla Gamage S., Sas-Chen A., Schwartz S. & Meier J. L. (2021), Nature protocols. 16, p. 2286-2307
  • Breakthroughs and Bottlenecks in Microbiome Research

    Authors: Liwinski T., Leshem A. & Elinav E. (2021),
  • The evolutionarily conserved long non-coding RNA LINC00261 drives neuroendocrine prostate cancer proliferation and metastasis via distinct nuclear and cytoplasmic mechanisms

    Authors: Mather R. L., Parolia A., Carson S. E., Venalainen E., Roig-Carles D., Jaber M., Chu S., Alborelli I., Wu R., Lin D., Nabavi N., Jachetti E., Colombo M. P., Xue H., Pucci P., Ci X., Hawkes C., Li Y., Pandha H., Ulitsky I., Marconett C., Quagliata L., Jiang W., Romero I., Wang Y. & Crea F. (2021), Molecular Oncology. 15, 7, p. 1921-1941
  • Single-cell transcriptomic analyses provide insights into the developmental origins of neuroblastoma

    Authors: Jansky S., Sharma A. K., Körber V., Quintero A., Toprak U. H., Wecht E. M., Gartlgruber M., Greco A., Chomsky E., Grünewald T. G. P., Henrich K., Tanay A., Herrmann C., Höfer T. & Westermann F. (2021), Nature Genetics.
  • Impaired cell-cell communication in the multicellular cyanobacterium Anabaena affects carbon uptake, photosynthesis, and the cell wall

    Authors: Camargo S., Leshkowitz D., Dassa B., Mariscal V., Flores E., Stavans J. & Arbel-Goren R. (2021), iScience. 24, 1, 101977
  • Identification of resistance pathways and therapeutic targets in relapsed multiple myeloma patients through single-cell sequencing

    Authors: Zada M., Wang S., Bornstein C., David E., Moshe A., Li B., Shlomi-loubaton S., Gatt M. E., Gur C., Lavi N., Ganzel C., Luttwak E., Chubar E., Rouvio O., Vaxman I., Pasvolsky O., Ballan M., Tadmor T., Nemets A., Jarchowcky-dolberg O., Shvetz O., Laiba M., Shpilberg O., Dally N., Avivi I., Weiner A. & Amit I. (2021), Nature Medicine. 27, 3, p. 491-503
  • Altered Protein Abundance and Localization Inferred from Sites of Alternative Modification by Ubiquitin and SUMO

    Authors: Ulman A., Levin T., Dassa B., Javitt A., Kacen A., Shmueli M. D., Eisenberg-Lerner A., Sheban D., Fishllevich S., Levy E. D. & Merbl Y. (2021), Journal of Molecular Biology. 433, 21, 167219
  • A broad analysis of splicing regulation in yeast using a large library of synthetic introns

    Authors: Schirman D., Yakhini Z., Pilpel Y. & Dahan O. (2021), PLoS Genetics. 17, 9, e1009805
  • La biologie cellulaire par les nombres

    Authors: Milo R. & Phillips R. (2021),
  • Spatial discordances between mRNAs and proteins in the intestinal epithelium

    Authors: Harnik Y., Buchauer L., Ben-Moshe S., Averbukh I., Levin Y., Savidor A., Eilam R., Moor A. E. & Itzkovitz S. (2021), Nature metabolism. 3, 12, p. 1680-1693
  • Dissection of floral transition by single-meristem transcriptomes at high temporal resolution

    Authors: Meir Z., Aviezer I., Chongloi G. L., Ben-Kiki O., Bronstein R., Mukamel Z., Keren-Shaul H., Jaitin D., Tal L., Shalev-Schlosser G., Harel T. H., Tanay A. & Eshed Y. (2021), Nature Plants. 7, 6, p. 800-813
  • XCR1+ type 1 conventional dendritic cells drive liver pathology in non-alcoholic steatohepatitis

    Authors: Deczkowska A., David E., Ramadori P., Pfister D., Safran M., At The B., Giladi A., Jaitin D. A., Barboy O., Cohen M., Yofe I., Gur C., Shlomi-Loubaton S., Henri S., Suhail Y., Qiu M., Kam S., Hermon H., Lahat E., Ben Yakov G., Cohen-Ezra O., Davidov Y., Likhter M., Goitein D., Roth S., Weber A., Malissen B., Weiner A., Ben-Ari Z., Heikenwälder M., Elinav E. & Amit I. (2021), Nature Medicine. 27, 6, p. 1043-1054
  • Gut microbiota modulates weight gain in mice after discontinued smoke exposure

    Authors: Fluhr L., Mor U., Kolodziejczyk A. A., Dori-Bachash M., Leshem A., Itav S., Cohen Y., Suez J., Zmora N., Moresi C., Ayalon N., Valdés-Mas R., Molina S., Hornstein S., Karbi H., Kviatcovsky D., Livne A., Bukimer A., Eliyahu-Miller S., Metz A., Brandis A., Mehlman T., Kuperman Y., Tsoory M., Stettner N., Harmelin A., Shapiro H. & Elinav E. (2021), Nature (London). 600, 7890, p. 713-719
  • Unified platform for genetic and serological detection of COVID-19 with single-molecule technology

    Authors: Furth N., Shilo S., Cohen N., Erez N., Fedyuk V., Schrager A. M., Weinberger A., Dror A. A., Zigron A., Shehadeh M., Sela E., Srouji S., Amit S., Levy I., Segal E., Dahan R., Jones D., Douek D. C. & Shema E. (2021), PLoS ONE. 16, 7, e0255096
  • NF-κB activity during pancreas development regulates adult β-cell mass by modulating neonatal β-cell proliferation and apoptosis

    Authors: Sever D., Hershko-Moshe A., Srivastava R., Eldor R., Hibsher D., Keren-Shaul H., Amit I., Bertuzzi F., Krogvold L., Dahl-Jørgensen K., Ben-Dov I. Z., Landsman L. & Melloul D. (2021), Cell Death Discovery. 7, 1, 2
  • Dynamic changes in tRNA modifications and abundance during T cell activation

    Authors: Rak R., Polonsky M., Eizenberg-Magar I., Mo Y., Sakaguchi Y., Mizrahi O., Nachshon A., Reich-Zeliger S., Stern-Ginossar N., Dahan O., Suzuki T., Friedman N. & Pilpel Y. (2021), Proceedings of the National Academy of Sciences - PNAS. 118, 42, p. -, e210655611
  • Therapy based on functional RNA elements: Fragments of long noncoding RNAs show potential in treating a metabolic disorder in mice

    Authors: Perry R. B. & Ulitsky I. (2021), Science. 373, 6555, p. 623-624
  • Ex utero mouse embryogenesis from pre-gastrulation to late organogenesis

    Authors: Aguilera-Castrejon A., Shani T., Ghanem N., Itzkovich C., Slomovich S., Tarazi S., Bayerl J., Chugaeva V., Ayyash M., Ashouokhi S., Sheban D., Livnat N., Lasman L., Viukov S., Zerbib M., Addadi Y., Rais Y., Cheng S., Keren-Shaul H., Stelzer Y., Shlomo R., Massarwa R., Novershtern N. & Hanna J. H. (2021), Nature (London). 593, 7857, p. 119-124
  • Basic Biology of Rhythms and the Microbiome

    Authors: Heinemann M., Ratiner K. & Elinav E. (2021), Circadian Rhythms in Bacteria and Microbiomes. p. 317-328
  • Signals of hope: gauging the impact of a rapid national vaccination campaign

    Authors: Shilo S., Rossman H. & Segal E. (2021),
  • Maturation of the neonatal oral mucosa involves unique epithelium-microbiota interactions

    Authors: Koren N., Zubeidat K., Saba Y., Horev Y., Barel O., Wilharm A., Heyman O., Wald S., Eli-berchoer L., Shapiro H., Nadler C., Elinav E., Wilensky A., Prinz I., Bercovier H. & Avi-Hai H. (2021), Cell Host and Microbe. 29, 2, p. 197-209.e5
  • Photovoltaic-driven microbial protein production can use land and sunlight more efficiently than conventional crops

    Authors: Leger D., Matassa S., Noor E., Shepon A., Milo R. & Bar-Even A. (2021), Proceedings of the National Academy of Sciences - PNAS. 118, 26, e201502511
  • Probiotics impact the antibiotic resistance gene reservoir along the human GI tract in a person-specific and antibiotic-dependent manner

    Authors: Montassier E., Valdés-Mas R., Batard E., Zmora N., Dori-Bachash M., Suez J. & Elinav E. (2021), Nature Microbiology. 6, 8, p. 1043-1054
  • Senescent cells and the incidence of age-related diseases

    Authors: Katzir I., Adler M., Karin O., Mendelsohn-Cohen N., Mayo A. & Alon U. (2021), Aging Cell. 20, 3, e13314
  • SUMOylation of linker histone H1 drives chromatin condensation and restriction of embryonic cell fate identity

    Authors: Sheban D., Shani T., Maor R., Aguilera-Castrejon A., Mor N., Oldak B., Shmueli M. D., Eisenberg-Lerner A., Bayerl J., Hebert J., Viukov S., Chen G., Kacen A., Krupalnik V., Chugaeva V., Tarazi S., Rodríguez-delaRosa A., Zerbib M., Ulman A., Masarwi S., Kupervaser M., Levin Y., Shema E., David Y., Novershtern N., Hanna J. H. & Merbl Y. (2021), Molecular Cell. 82, 1, p. 1-17
  • Toward a better understanding of intermittent fasting effects: Ramadan fasting as a model

    Authors: Abdeen S. K. & Elinav E. (2021), The American journal of clinical nutrition. 113, 5, p. 1075-1076
  • Personalized lab test models to quantify disease potentials in healthy individuals

    Authors: Cohen N. M., Schwartzman O., Jaschek R., Lifshitz A., Hoichman M., Balicer R., Shlush L. I., Barbash G. & Tanay A. (2021), Nature Medicine. 27, 9, p. 1582-1591
  • IRS1 phosphorylation underlies the non-stochastic probability of cancer cells to persist during EGFR inhibition therapy

    Authors: Jacob Berger A., Gigi E., Kupershmidt L., Meir Z., Gavert N., Zwang Y., Prior A., Gilad S., Harush U., Haviv I., Stemmer S. M., Blum G., Merquiol E., Mardamshina M., Kaminski Strauss S., Friedlander G., Bar J., Kamer I., Reizel Y., Geiger T., Pilpel Y., Levin Y., Tanay A., Barzel B., Reuveni H. & Straussman R. (2021), Nature Cancer. 2, 10, p. 1055-1070
  • PDB-wide identification of physiological hetero-oligomeric assemblies based on conserved quaternary structure geometry

    Authors: Dey S. & Levy E. D. (2021), Structure (London). 29, 11, p. 1303-1311.e3
  • Cyclic CMP and cyclic UMP mediate bacterial immunity against phages

    Authors: Tal N., Morehouse B. R., Millman A., Stokar-Avihail A., Avraham C., Fedorenko T., Yirmiya E., Herbst E., Brandis A., Mehlman T., Oppenheimer-Shaanan Y., Keszei A. F., Shao S., Amitai G., Kranzusch P. J. & Sorek R. (2021), Cell. 184, 23, p. 5728-5739
  • High-resolution mapping of function and protein binding in an RNA nuclear enrichment sequence

    Authors: Lubelsky Y., Zuckerman B. & Ulitsky I. (2021), The EMBO Journal. 40, 12, e106357
  • Bi-fated tendon-to-bone attachment cells are regulated by shared enhancers and KLF transcription factors

    Authors: Kult S., Olender T., Osterwalder M., Markman S., Leshkowitz D., Krief S., Blecher-Gonen R., Ben-Moshe S., Farack L., Keren-Shaul H., Salame T. M., Capellini T. D., Itzkovitz S., Amit I., Visel A. & Zelzer E. (2021), eLife. 10, p. 1-29, 55361
  • Profiling the Blood Compartment of Hematopoietic Stem Cell Transplant Patients During Human Cytomegalovirus Reactivation

    Authors: Bernshtein B., Nachshon A., Shnayder M., Stern L., Avdic S., Blyth E., Gottlieb D., Abendroth A., Slobedman B., Stern-Ginossar N. & Schwartz M. (2021), Frontiers in Cellular and Infection Microbiology. 10, 607470
  • Production and analysis of human primordial germ cell–like cells

    Authors: Mitsunaga S., Shioda K., Hanna J. H., Isselbacher K. J. & Shioda T. (2021), Testicular Germ Cell Tumors: Methods and Protocols. p. 125-145
  • Recurrent deletions in clonal hematopoiesis are driven by microhomology-mediated end joining

    Authors: Feldman T., Bercovich A., Moskovitz Y., Chapal-Ilani N., Mitchell A., Medeiros J. J. F., Biezuner T., Kaushansky N., Minden M. D., Gupta V., Milyavsky M., Livneh Z., Tanay A. & Shlush L. I. (2021), Nature Communications. 12, 1, 2455
  • Prokaryotic viperins produce diverse antiviral molecules

    Authors: Bernheim A., Millman Dayan A. J., Ofir G., Meitav G., Avraham C., Shomar H., Rosenberg M. M., Tal N., Melamed S., Amitai G. & Sorek R. (2021), Nature. 589, 7840, p. 120-124
  • Meningeal lymphoid structures are activated under acute and chronic spinal cord pathologies

    Authors: Cohen M., Giladi A., Raposo C., Zada M., Li B., Ruckh J., Deczkowska A., Mohar B., Shechter R., Lichtenstein R. G., Amit I. & Schwartz M. (2021), Life Science Alliance. 4, 1, 202000907
  • Aberrant transcriptional and post-transcriptional regulation of SPAG5, a YAP-TAZ-TEAD downstream effector, fuels breast cancer cell proliferation

    Authors: Canu V., Donzelli S., Sacconi A., Lo Sardo F., Pulito C., Bossel N., Di Benedetto A., Muti P., Botti C., Domany E., Bicciato S., Strano S., Yarden Y. & Blandino G. (2021), Cell Death and Differentiation. 28, 5, p. 1493-1511
  • Protection against Covid-19 by BNT162b2 Booster across Age Groups

    Authors: Bar-On Y. M., Goldberg Y., Mandel M., Bodenheimer O., Freedman L., Alroy-Preis S., Ash N., Huppert A. & Milo R. (2021), The New England journal of medicine. 385, 26, p. 2421-2430
  • DNA methylation landscapes of 1538 breast cancers reveal a replication-linked clock, epigenomic instability and cis-regulation

    Authors: Batra R. N., Lifshitz A., Vidakovic A. T., Chin S., Sati-Batra A., Sammut S., Provenzano E., Ali H. R., Dariush A., Bruna A., Murphy L., Purushotham A., Ellis I., Green A., Garrett-Bakelman F. E., Mason C., Melnick A., Aparicio S. A. J. R., Rueda O. M., Caldas C. & Tanay A. (2021), Nature Communications. 12, 1, 5406
  • A non-classical monocyte-derived macrophage subset provides a splenic replication niche for intracellular Salmonella

    Authors: Hoffman D., Tevet Y., Trzebanski S., Rosenberg G., Vainman L., Solomon A., Hen-Avivi S., Ben-Moshe N. B. & Avraham R. (2021), Immunity. 54, 12, p. 2712-2723.e6
  • ER-SURF: Riding the Endoplasmic Reticulum Surface to Mitochondria

    Authors: Koch C., Schuldiner M. & Herrmann J. M. (2021), International Journal of Molecular Sciences. 22, 17, p. 9655-
  • Effector-mediated membrane disruption controls cell death in CBASS antiphage defense

    Authors: Duncan-Lowey B., McNamara-Bordewick N. K., Tal N., Sorek R. & Kranzusch P. J. (2021), Molecular Cell. 81, 24, p. 5039 -5051.e5
  • Reporting guidelines for human microbiome research: the STORMS checklist

    Authors: Elinav E. & Segal E. (2021), Nature Medicine. 27, 11, p. 1885-1892
  • Accumulation of cis- and trans-regulatory variations is associated with phenotypic divergence of a complex trait between yeast species

    Authors: Lupo O., Krieger G., Jonas F. & Barkai N. (2021), G3 (Bethesda, Md.). 11, 2, jkab016
  • Microbiome and cancer

    Authors: Cullin N., Azevedo Antunes C., Straussman R., Stein-Thoeringer C. K. & Elinav E. (2021), Cancer Cell. 39, 10, p. 1317-1341
  • SARS-CoV-2 uses a multipronged strategy to impede host protein synthesis

    Authors: Finkel Y., Gluck A., Nachshon A., Winkler R., Fisher T., Rozman B., Mizrahi O., Lubelsky Y., Zuckerman B., Slobodin B., Yahalom-Ronen Y., Tamir H., Ulitsky I., Israely T., Paran N., Schwartz M. & Stern-Ginossar N. (2021), Nature. 594, 7862, p. 240-245
  • Dichotomous metabolic networks govern human ILC2 proliferation and function

    Authors: Surace L., Doisne J., Croft C. A., Thaller A., Escoll P., Marie S., Petrosemoli N., Guillemot V., Dardalhon V., Topazio D., Cama A., Buchrieser C., Taylor N., Amit I., Musumeci O. & Di Santo J. P. (2021), Nature Immunology. 22, 11, p. 1367-1374
  • Cnm1 mediates nucleus–mitochondria contact site formation in response to phospholipid levels

    Authors: Eisenberg-Bord M., Zung N., Collado J., Drwesh L., Fenech E. J., Fadel A., Dezorella N., Bykov Y. S., Rapaport D., Fernandez-Busnadiego R. & Schuldiner M. (2021), The Journal of Cell Biology. 220, 11, e202104100
  • The germinal center reaction depends on RNA methylation and divergent functions of specific methyl readers

    Authors: Grenov A. C., Moss L., Edelheit S., Cordiner R., Schmiedel D., Biram A., Hanna J. H., Jensen T. H., Schwartz S. & Shulman Z. (2021), Journal of Experimental Medicine. 218, 10, e20210360
  • Evolutionary cell type mapping with single-cell genomics

    Authors: Tanay A. & Sebé-Pedrós A. (2021), Trends in Genetics. 37, 10, p. 919-932
  • SCIRT lncRNA Restrains Tumorigenesis by Opposing Transcriptional Programs of Tumor-Initiating Cells

    Authors: Zagorac S., de Giorgio A., Dabrowska A., Kalisz M., Casas-Vila N., Cathcart P., Yiu A., Ottaviani S., Degani N., Lombardo Y., Tweedie A., Nissan T., Vance K. W., Ulitsky I., Stebbing J. & Castellano L. (2021), Cancer Research. 81, 3, p. 580-593
  • Tumor cells in light-chain amyloidosis and myeloma show different transcriptional rewiring of normal plasma cell development

    Authors: Alameda D., Goicoechea I., Vicari M., Arriazu E., Nevone A., Rodríguez S., Lasa M., Puig N., Cedena M., Alignani D., Garate S., Lara-Astiaso D., Vilas-Zornoza A., Sarvide S., Ocio E. M., Lecumberri R., Garcia de Coca A., Labrador J., Gonzalez M., Palomera L., Gironella M., Cabañas V., Casanova M., Oriol A., Krsnik I., Pérez-Montaña A., de la Rubia J., de la Puerta J., de Arriba F., Fazio V. M., Martinez-Lopez J., Lahuerta J., Mateos M., Odero M. D., Prosper F., Weiner A., Amit I., Nuvolone M., San-Miguel J. F. F. & Paiva B. (2021), Blood. 138, 17, p. 1583-1589
  • Control of Foxp3 induction and maintenance by sequential histone acetylation and DNA demethylation

    Authors: Li J., Xu B., He M., Zong X., Cunningham T., Sha C., Fan Y., Cross R., Hanna J. H. & Feng Y. (2021), Cell reports (Cambridge). 37, 11, 110124
  • Decoupling of degradation from deadenylation reshapes poly(A) tail length in yeast meiosis

    Authors: Wiener D., Antebi Y. & Schwartz S. (2021), Nature Structural & Molecular Biology. 28, 12, p. 1038-1049
  • Neuronal deletion of Wwox, associated with WOREE syndrome, causes epilepsy and myelin defects

    Authors: Repudi S., Steinberg D. J., Elazar N., Breton V. L., Aquilino M. S., Saleem A., Abu-Swai S., Vainshtein A., Eshed-Eisenbach Y., Vijayaragavan B., Behar O., Hanna J. J., Peles E., Carlen P. L. & Aqeilan R. I. (2021), Brain (London, England : 1878). 144, 10, p. 3061-3077
  • Postbiotics - when simplification fails to clarify

    Authors: Aguilar-Toalá J. E., Arioli S., Behare P., Belzer C., Berni Canani R., Chatel J., D’Auria E., de Freitas M. Q., Elinav E., Esmerino E. A., García H. S., da Cruz A. G., González-Córdova A. F., Guglielmetti S., de Toledo Guimarães J., Hernández-Mendoza A., Langella P., Liceaga A. M., Magnani M., Mohamad Lal M. T., Martin R., Mora D., Moradi M., Morelli L., Mosca F., Nazzaro F., Pimentel T. C., Ran C., Ranadheera C. S., Rescigno M., Salas A., Sant’Ana A. S., Sivieri K., Sokol H., Taverniti V., Vallejo-Cordoba B., Zelenka J. & Zhou Z. (2021), Nature reviews. Gastroenterology & hepatology. 18, 11, p. 825-826
  • Ex Utero Culture of Mouse Embryos from Pregastrulation to Advanced Organogenesis

    Authors: Aguilera-Castrejon A. & Hanna J. H. (2021), Nature. 593, 7857, p. 119-124, e63160
  • The NLRP6 inflammasome

    Authors: Zheng D., Kern L. & Elinav E. (2021), Immunology. 162, 3, p. 281-289
  • Diversity and functional landscapes in the microbiota of animals in the wild

    Authors: Levin D., Raab N., Pinto Y., Rothschild D., Zanir G., Godneva A., Mellul N., Futorian D., Gal D., Leviatan S., Zeevi D., Bachelet I. & Segal E. (2021), Science (American Association for the Advancement of Science). 372, 6539, p. 254-+, eabb5352
  • Retrospective cell lineage reconstruction in humans by using short tandem repeats

    Authors: Tao L., Raz O., Marx Z., Ghosh M. S., Huber S., Greindl-Junghans J., Biezuner T., Amir S., Milo L., Adar R., Levy R., Onn A., Chapal-Ilani N., Berman V., Ben Arie A., Rom G., Oron B., Halaban R., Czyz Z. T., Werner-Klein M., Klein C. A. & Shapiro E. (2021), Cell Reports Methods. 1, 3, 100054
  • Large-scale association analyses identify host factors influencing human gut microbiome composition

    Authors: Kurilshikov A., Medina-Gomez C., Bacigalupe R., Barkan E., Segal E. & Rothschild Bup D. (2021), Nature Genetics. 53, 2, p. 156-165
  • Waning Immunity after the BNT162b2 Vaccine in Israel

    Authors: Goldberg Y., Mandel M., Bar-On Y. M., Bodenheimer O., Freedman L., Haas E. J., Milo R., Alroy-Preis S., Ash N. & Huppert A. (2021), The New England journal of medicine. 385, 24, e85
  • Comparison of seven single cell whole genome amplification commercial kits using targeted sequencing

    Authors: Biezuner T., Raz O., Amir S., Milo L., Adar R., Fried Y., Ainbinder E. & Shapiro E. (2021), Scientific Reports. 1, 17171
  • Novel transcript discovery expands the repertoire of pathologically-associated, long non-coding rnas in vascular smooth muscle cells

    Authors: Bennett M., Ulitsky I., Alloza I., Vandenbroeck K., Miscianinov V., Mahmoud A. D., Ballantyne M., Rodor J. & Baker A. H. (2021), International Journal of Molecular Sciences. 22, 3, 1484
  • Dietary fiber and probiotics influence the gut microbiome and melanoma immunotherapy response

    Authors: Spencer C. N., McQuade J. L., Gopalakrishnan V., McCulloch J. A., Vetizou M., Cogdill A. P., Khan M. A. W., Zhang X., White M. G., Peterson C. B., Wong M. C., Morad G., Rodgers T., Badger J. H., Helmink B. A., Andrews M. C., Rodrigues R. R., Morgun A., Kim Y. S., Roszik J., Hoffman K. L., Zheng J., Zhou Y., Medik Y. B., Kahn L. M., Johnson S., Hudgens C. W., Wani K., Gaudreau P., Harris A. L., Jamal M. A., Baruch E. N., Perez-Guijarro E., Day C., Merlino G., Pazdrak B., Lochmann B. S., Szczepaniak-Sloane R. A., Arora R., Anderson J., Zobniw C. M., Posada E., Sirmans E., Simon J., Haydu L. E., Burton E. M., Wang L., Dang M., Clise-Dwyer K., Schneider S., Chapman T., Anang N. A. S., Duncan S., Toker J., Malke J. C., Glitza I. C., Amaria R. N., Tawbi H. A., Diab A., Wong M. K., Patel S. P., Woodman S. E., Davies M. A., Ross M. I., Gershenwald J. E., Lee J. E., Hwu P., Jensen V., Samuels Y., Straussman R., Ajami N. J., Nelson K. C., Nezi L., Petrosino J. F., Futreal P. A., Lazar A. J., Hu J., Jenq R. R., Tetzlaff M. T., Yan Y., Garrett W. S., Huttenhower C., Sharma P., Watowich S. S., Allison J. P., Cohen L., Trinchieri G., Daniel C. R. & Wargo J. A. (2021), Science. 374, 6575, p. 1632-1640
  • Space-time logic of liver gene expression at sub-lobular scale

    Authors: Droin C., Kholtei J. E., Bahar Halpern K., Hurni C., Rozenberg M., Muvkadi S., Itzkovitz S. & Naef F. (2021), Nature metabolism. 3, 1, p. 43-58
  • Gatekeepers of the gut: The roles of proteasomes at the gastrointestinal barrier

    Authors: Mohapatra G., Eisenberg-Lerner A. & Merbl Y. (2021), Biomolecules. 11, 7, 989
  • Challenges of conducting a remote behavioral weight loss study: Lessons learned and a practical guide

    Authors: Hu L., Illiano P., Pompeii M. L., Popp C. J., Kharmats A. Y., Curran M., Perdomo K., Chen S., Bergman M., Segal E. & Sevick M. A. (2021), Contemporary Clinical Trials. 108, 106522
  • Our Microbiome: On the Challenges, Promises, and Hype

    Authors: Federici S., Suez J. & Elinav E. (2020), Symbiosis: Cellular, Molecular, Medical and Evolutionary Aspects. p. 539-557
  • Spatiotemporal Proteomic Analysis of Stress Granule Disassembly Using APEX Reveals Regulation by SUMOylation and Links to ALS Pathogenesis

    Authors: Marmor-Kollet H., Siany A., Kedersha N., Knafo N., Rivkin N., Danino Y. M., Moens T. G., Olender T., Sheban D., Cohen N., Dadosh T., Addadi Y., Ravid R., Eitan C., Toth Cohen B., Hofmann S., Riggs C. L., Advani V. M., Higginbottom A., Cooper-Knock J., Hanna J. H., Merbl Y., Van Den Bosch L., Anderson P., Ivanov P., Geiger T. & Hornstein E. (2020), Molecular Cell. 80, 5, p. 876-891
  • Cargo Release from Myosin V Requires the Convergence of Parallel Pathways that Phosphorylate and Ubiquitylate the Cargo Adaptor

    Authors: Wong S., Hepowit N. L., Port S. A., Yau R. G., Peng Y., Azad N., Habib A., Harpaz N., Schuldiner M., Hughson F. M., MacGurn J. A. & Weisman L. S. (2020), Current Biology. 30, 22, p. 4399-4412
  • The RNA modification N6-methyladenosine as a novel regulator of the immune system

    Authors: Shulman Z. & Stern-Ginossar N. (2020), Nature Immunology. 21, 5, p. 501-512
  • Phages and their potential to modulate the microbiome and immunity

    Authors: Federici S., Nobs S. P. & Elinav E. (2020), Cellular and Molecular Immunology. 18, p. 889-904
  • The microbiome and cytosolic innate immune receptors

    Authors: Liwinski T., Zheng D. & Elinav E. (2020), Immunological Reviews. 1, p. 207-224
  • The Physiology, Pathology, and Potential Therapeutic Applications of the TREM2 Signaling Pathway

    Authors: Deczkowska A., Weiner A. & Amit I. (2020), Cell. 181, 6, p. 1207-1217
  • Dynamic RNA acetylation revealed by quantitative cross-evolutionary mapping

    Authors: Sas-Chen A., Thomas J. M., Matzov D., Taoka M., Nance K. D., Nir R., Bryson K. M., Shachar R., Liman G. L. S., Burkhart B. W., Gamage S. T., Nobe Y., Briney C. A., Levy M. J., Fuchs R. T., Robb G. B., Hartmann J., Sharma S., Lin Q., Florens L., Washburn M. P., Isobe T., Santangelo T. J., Shalev-Benami M., Meier J. L. & Schwartz S. (2020), Nature. 583, 7817, p. 638-643
  • Rationale and design of a randomised controlled trial testing the effect of personalised diet in individuals with pre-diabetes or type 2 diabetes mellitus treated with metformin

    Authors: Htet T. D., Godneva A., Liu Z., Chalmers E., Kolobkov D., Snaith J. R., Richens R., Toth K., Danta M., Hng T. M., Elinav E., Segal E., Greenfield J. R. & Samocha-Bonet D. (2020), BMJ Open. 10, 10, e037859
  • Double the Fun, Double the Trouble: Paralogs and Homologs Functioning in the Endoplasmic Reticulum

    Authors: Fenech E. J., Ben-Dor S. & Schuldiner M. (2020), Annual Review of Biochemistry. 89, p. 637-666
  • The Role of Synthetic Biology in Atmospheric Greenhouse Gas Reduction: Prospects and Challenges

    Authors: DeLisi C., Patrinos A., MacCracken M., Drell D., Annas G., Arkin A., Church G., Cook-Deegan R., Jacoby H., Lidstrom M., Melillo J., Milo R., Paustian K., Reilly J., Roberts R. J., Segrè D., Solomon S., Woolf D., Wullschleger S. D. & Yang X. (2020), BioDesign Research. 2020, 1016207
  • Unbiased yeast screens identify cellular pathways affected in Niemann-Pick disease type C

    Authors: Colaco A., Fernandez-Suarez M. E., Shepherd D., Gal L., Bibi C., Chuartzman S., Diot A., Morten K., Eden E., Porter F. D., Poulton J., Platt N., Schuldiner M. & Platt F. M. (2020), Life Science Alliance. 3, 7, 201800253
  • Designer protein assemblies with tunable phase diagrams in living cells

    Authors: Heidenreich M., Georgeson J. M., Locatelli E., Rovigatti L., Nandi S. K., Steinberg A., Nadav Y., Shimoni E., Safran S. A., Doye J. P. K. & Levy E. D. (2020), Nature Chemical Biology. 16, 9, p. 939-945
  • A new model for the HPA axis explains dysregulation of stress hormones on the timescale of weeks

    Authors: Karin O., Raz M., Tendler A., Bar A., Kohanim Y. K., Milo T. & Alon U. (2020), Molecular Systems Biology. 16, 7, 209510
  • Are noncommunicable diseases communicable?

    Authors: Finlay B. B., Blaser M. J., Bosch T. C. G., Dominguez -Bello M. C. & Elinav E. (2020),
  • Human cytomegalovirus long noncoding RNA4.9 regulates viral DNA replication

    Authors: Tai-Schmiedel J., Karniely S., Lau B., Ezra A., Eliyahu E., Nachshon A., Kerr K., Suárez N., Schwartz M., Davison A. J. & Stern-Ginossar N. (2020), PLoS Pathogens. 16, 4, 1008390
  • A single cell atlas of the human liver tumor microenvironment

    Authors: Massalha H., Bahar Halpern K., Abu-Gazala S., Jana T., Massasa E. E., Moor A. E., Buchauer L., Rozenberg M., Pikarsky E., Amit I., Zamir G. & Itzkovitz S. (2020), Molecular Systems Biology. 16, 12, 9682
  • A single-cell view on alga-virus interactions reveals sequential transcriptional programs and infection states

    Authors: Ku C., Sheyn U., Sebe-Pedros A., Ben-Dor S., Schatz D., Tanay A., Rosenwasser S. & Vardi A. (2020), Science Advances. 6, 21, eaba4137
  • Functional annotation of human long noncoding RNAs via molecular phenotyping

    Authors: Ramilowski J. A., Yip C. W., Agrawal S., Chang J., Ciani Y., Kulakovskiy I. V., Mendez M., Ooi J. L. C., Ouyang J. F., Parkinson N., Petri A., Roos L., Severin J., Yasuzawa K., Abugessaisa I., Akalin A., Antonov I. V., Arner E., Bonetti A., Bono H., Borsari B., Brombacher F., Cameron C. J. F., Cannistraci C. V., Cardenas R., Cardon M., Chang H., Dostie J., Ducoli L., Favorov A., Fort A., Garrido D., Gil N., Gimenez J., Guler R., Handoko L., Harshbarger J., Hasegawa A., Hasegawa Y., Hashimoto K., Hayatsu N., Heutink P., Hirose T., Imada E. L., Itoh M., Kaczkowski B., Kanhere A., Kawabata E., Kawaji H., Kawashima T., Kelly S. T., Kojima M., Kondo N., Koseki H., Kouno T., Kratz A., Kurowska-Stolarska M., Kwon A. T. J., Leek J., Lennartsson A., Lizio M., Lopez-Redondo F., Luginbuhl J., Maeda S., Makeev V. J., Marchionni L., Medvedeva Y. A., Minoda A., Mueller F., Munoz-Aguirre M., Murata M., Nishiyori H., Nitta K. R., Noguchi S., Noro Y., Nurtdinov R., Okazaki Y., Orlando V., Paquette D., Parr C. J. C., Rackham O. J. L., Rizzu P., Martinez D. F. S., Sandelin A., Sanjana P., Semple C. A. M., Shibayama Y., Sivaraman D. M., Suzuki T., Szumowski S. C., Tagami M., Taylor M. S., Terao C., Thodberg M., Thongjuea S., Tripathi V., Ulitsky I., Verardo R., Vorontsov I. E., Yamamoto C., Young R. S., Baillie J. K., Forrest A. R. R., Guigo R., Hoffman M. M., Hon C. C., Kasukawa T., Kauppinen S., Kere J., Lenhard B., Schneider C., Suzuki H., Yagi K., Hoon M. J. L. d., Shin J. W. & Carninci P. (2020), Genome Research. 30, 7, p. 1060-1072
  • Predicting and affecting response to cancer therapy based on pathway-level biomarkers

    Authors: Ben-Hamo R., Berger A. J., Gavert N., Miller M., Pines G., Oren R., Pikarsky E., Benes C. H., Neuman T., Zwang Y., Efroni S., Getz G. & Straussman R. (2020), Nature Communications. 11, 1, 3296
  • A reference map of potential determinants for the human serum metabolome

    Authors: Bar N., Korem T., Weissbrod O., Zeevi D., Rothschild Bup D., Peled-Leviatan S., Kosower N., Lotan-Pompan M., Weinberger A. & Segal E. (2020), Nature. 588, 7836, p. 135-140
  • Niche rather than origin dysregulates mucosal Langerhans cells development in aged mice

    Authors: Horev Y., Salameh R., Nassar M., Capucha T., Saba Y., Barel O., Zubeidat K., Matanes D., Leibovich A., Heyman O., Eli-Berchoer L., Hanhan S., Betser-Cohen G., Shapiro H., Elinav E., Bercovier H., Wilensky A. & Hovav A. (2020), Mucosal Immunology. 13, 5, p. 767-776
  • Moving from probiotics to precision probiotics

    Authors: Veiga P., Suez J., Derrien M. & Elinav E. (2020),
  • Amyotrophic lateral sclerosis and intestinal microbiota-toward establishing cause and effect

    Authors: Gotkine M., Kviatcovsky D. & Elinav E. (2020), Gut Microbes. 11, 6, p. 1833-1841
  • Building an international consortium for tracking coronavirus health status

    Authors: Segal E., Zhang F., Lin X., King G., Shalem O., Shilo S., Allen W. E., Alquaddoomi F., Altae-Tran H., Anders S., Balicer R., Bauman T., Bonilla X., Booman G., Chan A. T., Cohen O., Coletti S., Davidson N., Dor Y., Drew D. A., Elemento O., Evans G., Ewels P., Gale J., Gavrieli A., Grad Y. H., Greene C. S., Hajirasouliha I., Jerala R., Kahles A., Kallioniemi O., Keshet A., Kocarev L., Landua G., Meir T., Muller A., Nguyen L. H., Oresic M., Ovchinnikova S., Peterson H., Prodanova J., Rajagopal J., Ratsch G., Rossman H., Rung J., Sboner A., Sigaras A., Spector T., Steinherz R., Stevens I., Vilo J. & Wilmes P. (2020),
  • Axes of a revolution: challenges and promises of big data in healthcare

    Authors: Shilo S., Rossman H. & Segal E. (2020), Nature Medicine. 26, 1, p. 29-38
  • A genome assembly and the somatic genetic and epigenetic mutation rate in a wild long-lived perennial Populus trichocarpa

    Authors: Hofmeister B. T., Denkena J., Colomé-Tatché M., Shahryary Y., Hazarika R., Grimwood J., Mamidi S., Jenkins J., Grabowski P. P., Sreedasyam A., Shu S., Barry K., Lail K., Adam C., Lipzen A., Sorek R., Kudrna D., Talag J., Wing R., Hall D. W., Jacobsen D., Tuskan G. A., Schmutz J., Johannes F. & Schmitz R. J. (2020), Genome Biology. 21, 1, p. 259, 259
  • Genome-wide detection of DNA double-strand breaks by in-suspension BLISS

    Authors: Bouwman B. A., Agostini F., Garnerone S., Petrosino G., Gothe H. J., Sayols S., Moor A. E., Itzkovitz S., Bienko M., Roukos V. & Crosetto N. (2020), Nature protocols. 12, p. 3894-3941
  • Lactate released by inflammatory bone marrow neutrophils induces their mobilization via endothelial GPR81 signaling

    Authors: Khatib-Massalha E., Bhattacharya S., Massalha H., Biram A., Golan K., Kollet O., Kumari A., Avemaria F., Petrovich-Kopitman E., Gur-Cohen S., Itkin T., Brandenburger I., Spiegel A., Shulman Z., Gerhart-Hines Z., Itzkovitz S., Gunzer M., Offermanns S., Alon R., Ariel A. & Lapidot T. (2020), Nature Communications. 11, 1, 3547
  • Single-cell analysis of clonal maintenance of transcriptional and epigenetic states in cancer cells

    Authors: Meir Z., Mukamel Z., Chomsky E., Lifshitz A. & Tanay A. (2020), Nature Genetics. 52, 7, p. 709-718
  • Characterization of Endoplasmic Reticulum (ER) in Human Pluripotent Stem Cells Revealed Increased Susceptibility to Cell Death upon ER Stress

    Authors: Ha T. W., Jeong J. H., Shin H., Kim H. K., Im J. S., Song B. H., Hanna J., Oh J. S., Woo D., Han J. & Lee M. R. (2020), Cells. 9, 5, 1078
  • Microbiome genomics for cancer prediction

    Authors: Adlung L., Elinav E., Greten T. F. & Korangy F. (2020), Nature Cancer. 1, 4, p. 379-381
  • Probiotics in the next-generation sequencing era

    Authors: Suez J., Zmora N. & Elinav E. (2020), Gut Microbes. 11, 1, p. 77-93
  • Not Going with the Flow: How Cells Adapt Internal Physics

    Authors: Garcia-Seisdedos H., Heidenreich M. & Levy E. D. (2020), Cell. 183, 6, p. 1462-1463
  • A framework for identifying regional outbreak and spread of COVID-19 from one-minute population-wide surveys

    Authors: Rossman H., Keshet A., Shilo S., Gavrieli A., Bauman T., Cohen O., Shelly E., Balicer R., Geiger B., Dor Y. & Segal E. (2020), Nature Medicine. 26, 5, p. 634-638
  • The human tumor microbiome is composed of tumor type-specific intracellular bacteria

    Authors: Nejman D., Livyatan I., Fuks G., Gavert N., Zwang Y., Geller L. T., Rotter-Maskowitz A., Weiser R., Mallel G., Gigi E., Meltser A., Douglas G. M., Kamer I., Gopalakrishnan V., Dadosh T., Levin-Zaidman S., Avnet S., Atlan T., Cooper Z. A., Arora R., Cogdill A. P., Khan M. A. W., Ologun G., Bussi Y., Weinberger A., Lotan-Pompan M., Golani O., Perry G., Rokah M., Bahar-Shany K., Rozeman E. A., Blank C. U., Ronai A., Shaoul R., Amit A., Dorfman T., Kremer R., Cohen Z. R., Harnof S., Siegal T., Yehuda-Shnaidman E., Gal-Yam E. N., Shapira H., Baldini N., Langille M. G. I., Ben-Nun A., Kaufman B., Nissan A., Golan T., Dadiani M., Levanon K., Bar J., Yust-Katz S., Barshack I., Peeper D. S., Raz D. J., Segal E., Wargo J. A., Sandbank J., Shental N. & Straussman R. (2020), Science. 368, 6494, p. 973-980
  • Cytosolic Events in the Biogenesis of Mitochondrial Proteins

    Authors: Bykov Y. S., Rapaport D., Herrmann J. M. & Schuldinert M. (2020), Trends in Biochemical Sciences. 45, 8, p. 650-667
  • Context-dependent functional compensation between Ythdf m6A reader proteins

    Authors: Lasman L., Krupalnik V., Viukov S., Mor N., Aguilera-Castrejon A., Schneir D., Bayerl J., Mizrahi O., Peles S., Tawil S., Sathe S., Nachshon A., Shani T., Zerbib M., Kilimnik I., Aigner S., Shankar A., Mueller J. R., Schwartz S., Stern-Ginossar N., Yeo G. W., Geula S., Novershtern N. & Hanna J. H. (2020), Genes and Development. 34, 19-20, p. 1373-1391
  • Intrinsically Disordered Regions Direct Transcription Factor In Vivo Binding Specificity

    Authors: Brodsky S., Jana T., Mittelman K., Chapal M., Kumar D. K., Carmi M. & Barkai N. (2020), Molecular Cell. 79, 3, p. 459-471
  • The gut microbiome and individual-specific responses to diet

    Authors: Leshem A., Segal E. & Elinav E. (2020), mSystems. 5, 5, e00665-20
  • Cxcl10(+) monocytes define a pathogenic subset in the central nervous system during autoimmune neuroinflammation

    Authors: Giladi A., Wagner L. K., Li H., Doerr D., Medaglia C., Paul F., Shemer A., Jung S., Yona S., Mack M., Leutz A., Amit I. & Mildner A. (2020), Nature Immunology. 21, 5, p. 525-534
  • Proteomic analysis reveals the direct recruitment of intrinsically disordered regions to stress granules in S. cerevisiae

    Authors: Zhu M., Kuechler E. R., Zhang J., Matalon O., Dubreuil B., Hofmann A., Loewen C., Levy E. D., Gsponer J. & Mayor T. (2020), Journal of Cell Science. 133, 13, jcs244657
  • Global shape of Toll activation is determined by wntD enhancer properties

    Authors: Rahimi N., Carmon S., Averbukh I., Khajouei F., Sinha S., Schejter E. D., Barkai N. & Shilo B. (2020), Proceedings of the National Academy of Sciences of the United States of America. 117, 3, p. 1552-1558
  • The intestinal microbiota fuelling metabolic inflammation

    Authors: Tilg H., Zmora N., Adolph T. E. & Elinav E. (2020), Nature Reviews Immunology. 20, 1, p. 40-54
  • Role of m(6)A in Embryonic Stem Cell Differentiation and in Gametogenesis

    Authors: Lasman L., Hanna J. H. & Novershtern N. (2020), Epigenomes. 4, 1, 5
  • Elevated Calprotectin and Abnormal Myeloid Cell Subsets Discriminate Severe from Mild COVID-19

    Authors: Silvin A., Chapuis N., Dunsmore G., Goubet A., Dubuisson A., Derosa L., Almire C., Henon C., Kosmider O., Droin N., Rameau P., Catelain C., Alfaro A., Dussiau C., Friedrich C., Sourdeau E., Marin N., Szwebel T., Cantin D., Mouthon L., Borderie D., Deloger M., Bredel D., Mouraud S., Drubay D., Andrieu M., Lhonneur A., Saada V., Stoclin A., Willekens C., Pommeret F., Griscelli F., Ng L. G., Zhang Z., Bost P., Amit I., Barlesi F., Marabelle A., Pene F., Gachot B., Andre F., Zitvogel L., Ginhoux F., Fontenay M. & Solary E. (2020), Cell. 182, 6, p. 1401-1418
  • The pan-immune system of bacteria: antiviral defence as a community resource

    Authors: Bernheim A. & Sorek R. (2020), Nature Reviews Microbiology. 18, 2, p. 113-119
  • Transcription Dynamics Regulate Poly(A) Tails and Expression of the RNA Degradation Machinery to Balance mRNA Levels

    Authors: Slobodin B., Bahat A., Sehrawat U., Becker-Herman S., Zuckerman B., Weiss A. N., Han R., Elkon R., Agami R., Ulitsky I., Shachar I. & Dikstein R. (2020), Molecular Cell. 78, 3, p. 434-444.e5
  • High-throughput interrogation of programmed ribosomal frameshifting in human cells

    Authors: Mikl M., Pilpel Y. & Segal E. (2020), Nature Communications. 11, 1, 3061
  • Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19

    Authors: Liao M., Liu Y., Yuan J., Wen Y., Xu G., Zhao J., Cheng L., Li J., Wang X., Wang F., Liu L., Amit I., Zhang S. & Zhang Z. (2020), Nature Medicine. 26, 6, p. 842-844
  • Regulation of gene expression by cis-acting long non-coding RNAs

    Authors: Gil N. & Ulitsky I. (2020), Nature Reviews Genetics. 21, 2, p. 102-117
  • LifeTime and improving European healthcare through cell-based interceptive medicine

    Authors: Rajewsky N., Almouzni G., Amit I., Tanay A. & Reiner O. (2020), Nature. 587, 7834, p. 377-386
  • Single-cell genomic approaches for developing the next generation of immunotherapies

    Authors: Yofe I., Dahan R. & Amit I. (2020), Nature Medicine. 26, 2, p. 171-177
  • Host-Viral Infection Maps Reveal Signatures of Severe COVID-19 Patients

    Authors: Bost P., Giladi A., Liu Y., Bendjelal Y., Xu G., David E., Blecher-Gonen R., Cohen M., Medaglia C., Li H., Deczkowska A., Zhang S., Schwikowski B., Zhang Z. & Amit I. (2020), Cell. 181, 7, p. 1475-1488
  • Point mutations in topoisomerase I alter the mutation spectrum in E. coli and impact the emergence of drug resistance genotypes

    Authors: Bachar A., Itzhaki E., Gleizer S., Shamshoom M., Milo R. & Antonovsky N. (2020), Nucleic Acids Research. 48, 2, p. 761-769
  • C/EBP beta-Dependent Epigenetic Memory Induces Trained Immunity in Hematopoietic Stem Cells

    Authors: de Laval B., Maurizio J., Kandalla P. K., Brisou G., Simonnet L., Huber C., Gimenez G., Matcovitch-Natan O., Reinhardt S., David E., Mildner A., Leutz A., Nadel B., Bordi C., Amit I., Sarrazin S. & Sieweke M. H. (2020), Cell Stem Cell. 26, 5, p. 657-674
  • Comprehensive annotations of human herpesvirus 6A and 6B genomes reveal novel and conserved genomic features

    Authors: Finkel Y., Schmiedel D., Tai-Schmiedel J., Nachshon A., Winkler R., Dobesova M., Schwartz M., Mandelboim O. & Stern-Ginossar N. (2020), eLife. 9, 50960
  • Bystander IFN-gamma activity promotes widespread and sustained cytokine signaling altering the tumor microenvironment

    Authors: Thibaut R., Bost P., Milo I., Cazaux M., Lemaitre F., Garcia Z., Amit I., Breart B., Cornuot C., Schwikowski B. & Bousso P. (2020), Nature Cancer. 1, 3, p. 302-314
  • Deep microbial analysis of multiple placentas shows no evidence for a placental microbiome

    Authors: Kuperman A. A., Zimmerman A., Hamadia S., Ziv O., Gurevich V., Fichtman B., Gavert N., Straussman R., Rechnitzer H., Barzilay M., Shvalb S., Bornstein J., Ben-Shachar I., Yagel S., Haviv I. & Koren O. (2020), BJOG: An International Journal of Obstetrics and Gynaecology. 127, 2, p. 159-169
  • Diet Diurnally Regulates Small Intestinal Microbiome-Epithelial-Immune Homeostasis and Enteritis

    Authors: Tuganbaev T., Mor U., Bashiardes S., Liwinski T., Nobs S. P., Leshem A., Dori-Bachash M., Thaiss C. A., Pinker E. Y., Ratiner K., Adlung L., Federici S., Kleimeyer C., Moresi C., Yamada T., Cohen Y., Zhang X., Massalha H., Massasa E., Koni P. A., Kuperman Y., Harmelin A., Gao N., Itzkovitz S., Honda K., Shapiro H. & Elinav E. (2020), Cell. 182, 6, p. 1441-1459.e21
  • Regulation of neuronal commitment in mouse embryonic stem cells by the Reno1/Bahcc1 locus

    Authors: Hezroni H., Perry R. B., Gil N., Degani N. & Ulitsky I. (2020), EMBO Reports. 21, 11, e51264
  • Timescales of Human Hair Cortisol Dynamics

    Authors: Maimon L., Milo T., Moyal R. S., Mayo A., Danon T., Bren A. & Alon U. (2020), iScience. 23, 9, 101501
  • The Human Cytomegalovirus pUL145 Isoforms Act as Viral DDB1-Cullin-Associated Factors to Instruct Host Protein Degradation to Impede Innate Immunity

    Authors: Le-trilling V. T. K., Becker T., Nachshon A., Stern-ginossar N., Schöler L., Voigt S., Hengel H. & Trilling M. (2020), Cell Reports. 30, 7, p. 2248-2260
  • Lgr5+telocytes are a signaling source at the intestinal villus tip

    Authors: Bahar Halpern K., Massalha H., Zwick R. K., Moor A. E., Castillo-Azofeifa D., Rozenberg M., Farack L., Egozi A., Miller D. R., Averbukh I., Harnik Y., Weinberg-Corem N., de Sauvage F. J., Amit I., Klein O. D., Shoshkes-Carmel M. & Itzkovitz S. (2020), Nature Communications. 11, 1, 1936
  • Visualizing the structure and motion of the long noncoding RNA HOTAIR

    Authors: Spokoini-Stern R., Stamov D., Jessel H., Aharoni L., Haschke H., Giron J., Unger R., Segal E., Abu-Horowitz A. & Bachelet I. (2020), RNA. 26, 5, p. 629-636
  • Transcription Factor Binding to Replicated DNA

    Authors: Bar-Ziv R., Brodsky S., Chapal M. & Barkai N. (2020), Cell Reports. 30, 12, p. 3989-3995
  • High-Throughput Screen Identifies Host and Microbiota Regulators of Intestinal Barrier Function

    Authors: Grosheva I., Zheng D., Levy M., Polansky O., Lichtenstein A., Golani O., Dori-Bachash M., Moresi C., Shapiro H., Del Mare-Roumani S., Valdes-Mas R., He Y., Karbi H., Chen M., Harmelin A., Straussman R., Yissachar N., Elinav E. & Geiger B. (2020), Gastroenterology. 159, 5, p. 1807-1823
  • A MAFG-lncRNA axis links systemic nutrient abundance to hepatic glucose metabolism

    Authors: Pradas-Juni M., Hansmeier N. R., Link J. C., Schmidt E., Larsen B. D., Klemm P., Meola N., Topel H., Loureiro R., Dhaouadi I., Kiefer C. A., Schwarzer R., Khani S., Oliverio M., Awazawa M., Frommolt P., Heeren J., Scheja L., Heine M., Dieterich C., Buening H., Yang L., Cao H., De Jesus D. F., Kulkarni R. N., Zevnik B., Troeder S. E., Knippschild U., Edwards P. A., Lee R. G., Yamamoto M., Ulitsky I., Fernandez-Rebollo E., Vallim T. Q. d. A. & Kornfeld J. (2020), Nature Communications. 11, 1, p. 644, 644
  • The road ahead in genetics and genomics

    Authors: McGuire A. L., Gabriel S., Tishkoff S. A., Wonkam A., Chakravarti A., Furlong E. E. M., Treutlein B., Meissner A., Chang H. Y., Lopez-Bigas N., Segal E. & Kim J. (2020), Nature Reviews Genetics. 21, 10, p. 581-596
  • Generation of human endothelium in pig embryos deficient in ETV2

    Authors: Das S., Koyano-Nakagawa N., Gafni O., Maeng G., Singh B. N., Rasmussen T., Pan X., Choi K., Mickelson D., Gong W., Pota P., Weaver C. V., Kren S., Hanna J. H., Yannopoulos D., Garry M. G. & Garry D. J. (2020), Nature Biotechnology. 38, 3, p. 297-302
  • Diversity and classification of cyclic-oligonucleotide-based anti-phage signalling systems

    Authors: Millman A., Melamed S., Amitai G. & Sorek R. (2020), Nature Microbiology. 5, 12, p. 1608-1615
  • Characterization of the human tumor microbiome reveals tumor-type specific intra-cellular bacteria

    Authors: Livyatan I., Nejman D., Shental N. & Straussman R. (2020), OncoImmunology. 9, 1, 1800957
  • beta-Catenin safeguards the ground state of mouse pluripotency by strengthening the robustness of the transcriptional apparatus

    Authors: Zhang M., Lai Y., Krupalnik V., Guo P., Guo X., Zhou J., Xu Y., Yu Z., Liu L., Jiang A., Li W., Ma G., Li N., Fu X., Lv Y., Jiang M., Tariq M., Kanwal S., Liu H., Xu X., Zhang H., Huang Y., Wang L., Chen S., Babarinde I. A., Luo Z., Wang D., Zhou T., Ward C., He M., Ibanez D. P., Li Y., Zhou J., Yuan J., Feng Y., Arumugam K., Di Vicino U., Bao X., Wu G., Schambach A., Wang H., Sun H., Gao F., Qin B., Hutchins A. P., Doble B. W., Hartmann C., Cosma M. P., Qin Y., Xu G., Chen R., Volpe G., Chen L., Hanna J. H. & Esteban M. A. (2020), Science Advances. 6, 29, 1593
  • Transcriptional profiling reveals a subset of human breast tumors that retain wt TP53 but display mutant p53-associated features

    Authors: Benor G., Fuks G., Chin S., Rueda O. M., Mukherjee S., Arandkar S., Aylon Y., Caldas C., Domany E. & Oren M. (2020), Molecular Oncology. 14, 8, p. 1640-1652
  • The epitranscriptome beyond m6A

    Authors: Wiener D. & Schwartz S. (2020), Nature Reviews Genetics. 2, p. 119-131
  • Peptide-based quorum sensing systems in Paenibacillus polymyxa

    Authors: Voichek M., Maaß S., Kroniger T., Becher D. & Sorek R. (2020), Life Science Alliance. 3, 10, 202000847
  • Gene Architecture and Sequence Composition Underpin Selective Dependency of Nuclear Export of Long RNAs on NXF1 and the TREX Complex

    Authors: Zuckerman B., Ron M., Mikl M., Segal E. & Ulitsky I. (2020), Molecular Cell. 79, 2, p. 251-267
  • Spatiotemporal regulation of type I interferon expression determines the antiviral polarization of CD4(+) T cells

    Authors: De Giovanni M., Cutillo V., Giladi A., Sala E., Maganuco C. G., Medaglia C., Di Lucia P., Bono E., Cristofani C., Consolo E., Giustini L., Fiore A., Eickhoff S., Kastenmueller W., Amit I., Kuka M. & Iannacone M. (2020), Nature Immunology. 21, 3, p. 321-330
  • New horizons in mitochondrial contact site research

    Authors: Zung N. & Schuldiner M. (2020), Biological Chemistry. 401, 6-7, p. 793-809
  • Independent evolution of transcript abundance and gene regulatory dynamics

    Authors: Krieger G., Lupo O., Levy A. A. & Barkai N. (2020), Genome Research. 30, p. 1000-1011
  • PDBe-KB: a community-driven resource for structural and functional annotations

    Authors: Varadi M., Dey S. & Levy E. D. (2020), Nucleic Acids Research. 48, D1, p. D344-D353
  • Uncovering targeting priority to yeast peroxisomes using an in-cell competition assay

    Authors: Rosenthal M., Metzl-Raz E., Buergi J., Yifrach E., Drwesh L., Fadel A., Peleg Y., Rapaport D., Wilmanns M., Barkai N., Schuldiner M. & Zalckvar E. (2020), Proceedings of the National Academy of Sciences of the United States of America. 117, 35, p. 21432-21440
  • Single cell analysis reveals human cytomegalovirus drives latently infected cells towards an anergic-like monocyte state

    Authors: Shnayder M., Nachshon A., Rozman B., Bernshtein B., Lavi M., Fein N., Poole E., Avdic S., Blyth E., Gottlieb D., Abendroth A., Slobedman B., Sinclair J., Stern-Ginossar N. & Schwartz M. (2020), eLife. 9, e52168
  • Principles of Cell Circuits for Tissue Repair and Fibrosis

    Authors: Adler M., Mayo A., Zhou X., Franklin R. A., Meizlish M. L., Medzhitov R., Kallenberger S. M. & Alon U. (2020), iScience. 23, 2, 100841
  • A piggybacking mechanism enables peroxisomal localization of the glyoxylate cycle enzyme Mdh2 in yeast

    Authors: Gabay-Maskit S., Cruz-Zaragoza L. D., Shai N., Eisenstein M., Bibi C., Cohen N., Hansen T., Yifrach E., Harpaz N., Belostotsky R., Schliebs W., Schuldiner M., Erdmann R. & Zalckvar E. (2020), Journal of Cell Science. 133, 24, 244376
  • Highly active rubiscos discovered by systematic interrogation of natural sequence diversity

    Authors: Davidi D., Shamshoum M., Guo Z., Bar‐On Y. M., Prywes N., Oz A., Jablonska J., Flamholz A., Wernick D. G., Antonovsky N., Pins B., Shachar L., Hochhauser D., Peleg Y., Albeck S., Sharon I., Mueller‐Cajar O. & Milo R. (2020), The EMBO Journal. 39, 18, e104081
  • Acute liver failure is regulated by MYC- and microbiome-dependent programs

    Authors: Kolodziejczyk A. A., Federici S., Zmora N., Mohapatra G., Dori-Bachash M., Hornstein S., Leshem A., Reuveni D., Zigmond E., Tobar A., Salame T. M., Harmelin A., Shlomai A., Shapiro H., Amit I. & Elinav E. (2020), Nature Medicine. 26, 12, p. 1899-1911
  • Noncanonical regulation of phosphatidylserine metabolism by a Sec14-like protein and a lipid kinase

    Authors: Wang Y., Yuan P., Grabon A., Tripathi A., Lee D., Rodriguez M., Lonnfors M., Eisenberg-Bord M., Wang Z., Lam S. M., Schuldiner M. & Bankaitis V. A. (2020), Journal of Cell Biology. 219, 5, 201907128
  • Coupled scRNA-Seq and Intracellular Protein Activity Reveal an Immunosuppressive Role of TREM2 in Cancer

    Authors: Katzenelenbogen Y., Sheban F., Yalin A., Yofe I., Svetlichnyy D., Jaitin D. A., Bornstein C., Moshe A., Keren-Shaul H., Cohen M., Wang S., Li B., David E., Salame T., Weiner A. & Amit I. (2020), Cell. 182, 4, p. 872-885.e19
  • The NADH Dehydrogenase Nde1 Executes Cell Death after Integrating Signals from Metabolism and Proteostasis on the Mitochondrial Surface

    Authors: Saladi S., Boos F., Poglitsch M., Meyer H., Sommer F., Muehlhaus T., Schroda M., Schuldiner M., Madeo F. & Herrmann J. M. (2020), Molecular Cell. 77, 1, p. 189-202
  • Abortive Infection: Bacterial Suicide as an Antiviral Immune Strategy

    Authors: Lopatina A., Tal N. & Sorek R. (2020), Annual Review of Virology. 7, p. 371-384
  • NOP10 predicts lung cancer prognosis and its associated small nucleolar RNAs drive proliferation and migration

    Authors: Cui C., Liu Y., Gerloff D., Rohde C., Pauli C., Koehn M., Misiak D., Oellerich T., Schwartz S., Schmidt L., Wiewrodt R., Marra A., Hillejan L., Bartel F., Wickenhauser C., Huettelmaier S., Goellner S., Zhou F., Edemir B. & Mueller-Tidow C. (2020), Oncogene. 5, p. 909-921
  • Identifying gut microbes that affect human health

    Authors: Leviatan S. & Segal E. (2020),
  • Clinically Accurate Prediction of Glucose Levels in Patients with Type 1 Diabetes

    Authors: Amar Y., Shilo S., Oron T., Amar E., Phillip M. & Segal E. (2020), Diabetes Technology and Therapeutics. 22, 8, p. 562-569
  • Longitudinal Multi-omics Reveals Subset-Specific Mechanisms Underlying Irritable Bowel Syndrome

    Authors: Mars R. A. T., Ward T., Houtti M., Priya S., Lekatz H. R., Tang X., Sun Z., Kalari K. R., Bhattarai Y., Zheng T., Bar N., Frost G., Johnson A. J., van Treuren W., Han S., Ordog T., Grover M., Sonnenburg J., D'Amato M., Camilleri M., Elinav E., Segal E., Blekhman R., Farrugia G., Swann J. R., Knights D. & Kashyap P. C. (2020), Cell. 182, 6, p. 1460-1473
  • Golgi organization is regulated by proteasomal degradation

    Authors: Eisenberg-Lerner A., Benyair R., Hizkiahou N., Nudel N., Maor R., Kramer M. P., Shmueli M. D., Zigdon I., Lev M. C., Ulman A., Sagiv J. Y., Dayan M., Dassa B., Rosenwald M., Shachar I., Li J., Wang Y., Dezorella N., Khan S., Shimoni E., Porat Z., Avinoam O. & Merbl Y. (2020), Nature Communications. 11, 1, 409
  • The microbiota programs DNA methylation to control intestinal homeostasis and inflammation

    Authors: Ansari I., Raddatz G., Gutekunst J., Ridnik M., Cohen D., Abu-Remaileh M., Tuganbaev T., Shapiro H., Pikarsky E., Elinav E., Lyko F. & Bergman Y. (2020), Nature Microbiology. 5, 4, p. 610-619
  • Dissecting cellular crosstalk by sequencing physically interacting cells

    Authors: Giladi A., Cohen M., Medaglia C., Baran Y., Li B., Zada M., Bost P., Blecher-Gonen R., Salame T., Mayer J. U., David E., Ronchese F., Tanay A. & Amit I. (2020), Nature Biotechnology. 38, 5, p. 629-637
  • Longitudinal Multi-omics Reveals Subset-Specific Mechanisms Underlying Irritable Bowel Syndrome (vol 182, pg 1460, 2020): Longitudinal Multi-omics Reveals Subset-Specific Mechanisms Underlying Irritable Bowel Syndrome (Cell (2020) 182(6) (1460–1473.e17), (S0092867420309983), (10.1016/j.cell.2020.08.007))

    Authors: Mars R. A., Yang Y., Ward T., Houtti M., Priya S., Lekatz H. R., Tang X., Sun Z., Kalari K. R., Korem T., Bhattarai Y., Zheng T., Bar N., Frost G., Johnson A. J., van Treuren W., Han S., Ordog T., Grover M., Sonnenburg J., D'Amato M., Camilleri M., Elinav E., Segal E., Blekhman R., Farrugia G., Swann J. R., Knights D. & Kashyap P. C. (2020),
  • Pex14p Phosphorylation Modulates Import of Citrate Synthase 2 Into Peroxisomes in Saccharomyces cerevisiae

    Authors: Schummer A., Maier R., Gabay-Maskit S., Hansen T., Mühlhäuser W. W., Suppanz I., Fadel A., Schuldiner M., Girzalsky W., Oeljeklaus S., Zalckvar E., Erdmann R. & Warscheid B. (2020), Frontiers in Cell and Developmental Biology. 8, p. 549451-549451, 549451
  • Prediction of gestational diabetes based on nationwide electronic health records

    Authors: Artzi N. S., Shilo S., Hadar E., Rossman H., Barbash-Hazan S., Ben-Haroush A., Balicer R. D., Feldman B., Wiznitzer A. & Segal E. (2020),
  • Tumour heterogeneity and the evolutionary trade-offs of cancer

    Authors: Hausser J. & Alon U. (2020), Nature Reviews Cancer. 4, p. 247-257
  • Single-cell transcriptomics reveals regulators underlying immune cell diversity and immune subtypes associated with prognosis in nasopharyngeal carcinoma

    Authors: Chen Y., Yin J., Li W., Li H., Chen D., Zhang C., Lv J., Wang Y., Li X., Li J., Zhang P., Li Y., He Q., Yang X., Lei Y., Tang L., Zhou G., Mao Y., Wei C., Xiong K., Zhang H., Zhu S., Hou Y., Sun Y., Dean M., Amit I., Wu K., Kuang D., Li G., Liu N. & Ma J. (2020), Cell Research. 11, p. 1024-1042
  • Rich data sets could end costly drug discovery

    Authors: Segal E. (2020),
  • Longitudinal symptom dynamics of COVID-19 infection

    Authors: Mizrahi B., Shilo S., Rossman H., Kalkstein N., Marcus K., Barer Y., Keshet A., Shamir-Stein N., Shalev V., Zohar A. E., Chodick G. & Segal E. (2020), Nature Communications. 11, 1, 6208
  • Reconstituting tissue patterning: A synthetic morphogen reveals quantitative principles of tissue patterning

    Authors: Barkai N. & Shilo B. Z. (2020), Science (New York, N.Y.). 370, 6514, p. 292-293
  • Interaction between microbiota and immunity in health and disease

    Authors: Zheng D., Liwinski T. & Elinav E. (2020), Cell Research. 30, 6, p. 492-506
  • Gene Transcription as a Limiting Factor in Protein Production and Cell Growth

    Authors: Metzl-Raz E., Kafri M., Yaakov G. & Barkai N. (2020), G3: Genes, Genomes, Genetics. 10, 9, p. 3229-3242
  • Donor cell leukemia: reappearance of gene mutations in donor cells - more than an incidental phenomenon?

    Authors: Shahar Gabay T., Chapal-Ilani N., Moskovitz Y., Biezuner T., Oron B., Brilon Y., Fridman-Dror A., Sabah R., Balicer R., Tanay A., Mendelson-Cohen N., Dann E. J., Fineman R., Kaushansky N., Yehudai-Reshef S., Zuckerman T. & Shlush L. I. (2020), Haematologica. 105, 12, p. 2861-2863
  • STING cyclic dinucleotide sensing originated in bacteria

    Authors: Morehouse B. R., Govande A. A., Millman A., Keszei A. F. A., Lowey B., Ofir G., Shao S., Sorek R. & Kranzusch P. J. (2020), Nature. 586, 7829, p. 429-433
  • Engineering Microbes to Produce Fuel, Commodities, and Food from CO2

    Authors: Gleizer S., Bar-On Y. M., Ben-Nissan R. & Milo R. (2020), Cell Reports Physical Science. 1, 10, 100223
  • Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest

    Authors: Aharon-Hefetz N., Frumkin I., Mayshar Y., Dahan O., Pilpel Y. & Rak R. (2020), eLife. 9, e58461
  • Protocol for Single-Molecule Fluorescence In Situ Hybridization for Intact Pancreatic Tissue

    Authors: Farack L. & Itzkovitz S. (2020), STAR Protocols. 1, 1, 100007
  • Breast cancer colonization by Fusobacterium nucleatum accelerates tumor growth and metastatic progression

    Authors: Parhi L., Alon-Maimon T., Sol A., Nejman D., Shhadeh A., Fainsod-Levi T., Yajuk O., Isaacson B., Abed J., Maalouf N., Nissan A., Sandbank J., Yehuda-Shnaidman E., Ponath F., Vogel J., Mandelboim O., Granot Z., Straussman R. & Bachrach G. (2020), Nature Communications. 11, 1, 3259
  • Zonation of Pancreatic Acinar Cells in Diabetic Mice

    Authors: Egozi A., Halpern K. B., Farack L., Rotem H. & Itzkovitz S. (2020), Cell Reports. 32, 7, 108043
  • Global human-made mass exceeds all living biomass

    Authors: Elhacham E., Ben-Uri L., Grozovski J., Bar-On Y. M. & Milo R. (2020), Nature. 588, 7838, p. 442-444
  • Inflammasome activation and regulation: toward a better understanding of complex mechanisms

    Authors: Zheng D., Liwinski T. & Elinav E. (2020), Cell Discovery. 6, 36
  • Functional reconstitution of a bacterial CO 2 concentrating mechanism in Escherichia coli.

    Authors: Flamholz A. I., Dugan E., Blikstad C., Gleizer S., Ben-Nissan R., Amram S., Antonovsky N., Ravishankar S., Noor E., Bar-Even A., Milo R. & Savage D. F. (2020), eLife. 9, 59882
  • A guide to naming human non-coding RNA genes

    Authors: Seal R. L., Chen L., Griffiths-Jones S., Lowe T. M., Mathews M. B., O'Reilly D., Pierce A. J., Stadler P. F., Ulitsky I., Wolin S. L. & Bruford E. A. (2020), EMBO Journal. 39, 6, 103777
  • Cancer-associated fibroblast compositions change with breast cancer progression linking the ratio of S100A4(+) and PDPN+ CAFs to clinical outcome

    Authors: Friedman G., Levi-Galibov O., David E., Bornstein C., Giladi A., Dadiani M., Mayo A., Halperin C., Pevsner-Fischer M., Lavon H., Mayer S., Nevo R., Stein Y., Balint-Lahat N., Barshack I., Ali H. R., Caldas C., Nili-Gal-Yam E., Alon U., Amit I. & Scherz-Shouval R. (2020), Nature Cancer. 1, p. 692-708
  • Targeting purine synthesis in ASS1-expressing tumors enhances the response to immune checkpoint inhibitors

    Authors: Keshet R., Lee J. S., Adler L., Iraqi M., Ariav Y., Lim L. Q. J., Lerner S., Rabinovich S., Oren R., Katzir R., Tishler H. W., Stettner N., Goldman O., Landesman H., Galai S., Kuperman Y., Kuznetsov Y., Brandis A., Mehlman T., Malitsky S., Itkin M., Koehler S. E., Zhao Y., Talsania K., Shen T., Peled N., Ulitsky I., Porgador A., Ruppin E. & Erez A. (2020), Nature Cancer. 1, 9, p. 894-908
  • Circadian Influences of Diet on the Microbiome and Immunity

    Authors: Zheng D., Ratiner K. & Elinav E. (2020), Trends in Immunology. 41, 6, p. 512-530
  • SARS-CoV-2 (COVID-19) by the numbers

    Authors: Bar-On Y. M., Flamholz A., Phillips R. & Milo R. (2020), eLife. 9, 57309
  • Immune-Microbiota Interplay and Colonization Resistance in Infection

    Authors: Leshem A., Liwinski T. & Elinav E. (2020), Molecular Cell. 78, 4, p. 597-613
  • The coding capacity of SARS-CoV-2

    Authors: Finkel Y., Mizrahi O., Nachshon A., Weingarten-Gabbay S., Morgenstern D., Yahalom-Ronen Y., Tamir H., Achdout H., Stein D., Israeli O., Beth-Din A., Melamed S., Weiss S., Israely T., Paran N., Schwartz M. & Stern-Ginossar N. (2020), Nature. 589, 7840, p. 125-130
  • Nutrition Regulates Innate Immunity in Health and Disease

    Authors: Nobs S. P., Zmora N. & Elinav E. (2020), Annual Review of Nutrition. 40, p. 189-219
  • Experimental evolution of bacillus subtilis reveals the evolutionary dynamics of horizontal gene transfer and suggests adaptive and neutral effects

    Authors: Slomka S., Françoise I., Hornung G., Asraf O., Biniashvili T., Pilpel Y. & Dahan O. (2020), Genetics. 216, 2, p. 543-558
  • Endocrine Autoimmune Disease as a Fragility of Immune Surveillance against Hypersecreting Mutants

    Authors: Kohanim Y. K., Tendler A., Mayo A., Friedman N. & Alon U. (2020), Immunity. 52, 5, p. 872-884
  • Bacterial Retrons Function In Anti-Phage Defense

    Authors: Millman A., Bernheim A., Stokar-Avihail A., Fedorenko T., Voichek M., Leavitt A., Oppenheimer-Shaanan Y. & Sorek R. (2020), Cell. 183, 6, p. 1551-1561
  • Systematic Detection of Amino Acid Substitutions in Proteomes Reveals Mechanistic Basis of Ribosome Errors and Selection for Translation Fidelity

    Authors: Mordret E., Dahan O., Asraf O., Rak R., Yehonadav A., Barnabas G. D., Cox J., Geiger T., Lindner A. B. & Pilpel Y. (2019), Molecular Cell. 75, 3, p. 427-441
  • Lipid-Associated Macrophages Control Metabolic Homeostasis in a Trem2-Dependent Manner

    Authors: Jaitin D. A., Adlung L., Thaiss C. A., Weiner A., Li B., Descamps H., Lundgren P., Bleriot C., Liu Z., Deczkowska A., Keren-Shaul H., David E., Zmora N., Eldar S. M., Lubezky N., Shibolet O., Hill D. A., Lazar M. A., Colonna M., Ginhoux F., Shapiro H., Elinav E. & Amit I. (2019), Cell. 178, 3, p. 686-698.e14
  • Spatial heterogeneity in the mammalian liver

    Authors: Ben-Moshe S. & Itzkovitz S. (2019), Nature Reviews Gastroenterology and Hepatology. 16, 7, p. 395-410
  • Cooperativity between stromal cytokines drives the invasive migration of human breast cancer cells

    Authors: Elisha Y., Sagi Y., Klein G., Straussman R. & Geiger B. (2019), Philosophical Transactions of the Royal Society B: Biological Sciences. 374, 1779, 20180231
  • No guts, no research glory

    Authors: Elinav E. (2019), Nature Medicine. 25, 2, p. 196-196
  • Conversion of Escherichia coli to Generate All Biomass Carbon from CO2

    Authors: Gleizer S., Ben-Nissan R., Bar-On Y. M., Antonovsky N., Noor E., Zohar Y., Jona G., Krieger E., Shamshoum M., Bar-Even A. & Milo R. (2019), Cell. 179, 6, p. 1255-1263
  • The mitochondrial intermembrane space-facing proteins Mcp2 and Tgl2 are involved in yeast lipid metabolism

    Authors: Odendall F., Backes S., Tatsuta T., Weill U., Schuldiner M., Langer T., Herrmann J. M., Rapaport D. & Dimmer K. S. (2019), Molecular Biology of the Cell. 30, 21, p. 2681-2694
  • Tumor diversity and the trade-off between universal cancer tasks

    Authors: Hausser J., Szekely P., Bar N., Zimmer A., Sheftel H., Caldas C. & Alon U. (2019), Nature Communications. 10, 5423
  • Predictive models of subcellular localization of long RNAs

    Authors: Zuckerman B. & Ulitsky I. (2019), RNA. 25, 5, p. 557-572
  • Deterministic Somatic Cell Reprogramming Involves Continuous Transcriptional Changes Governed by Myc and Epigenetic-Driven Modules

    Authors: Zviran A., Mor N., Rais Y., Gingold H., Peles S., Chomsky E., Viukov S., Buenrostro J. D., Scognamiglio R., Weinberger L., Manor Y. S., Krupalnik V., Zerbib M., Hezroni H., Jaitin D. A., Larastiaso D., Gilad S., Benjamin S., Gafni O., Mousa A., Ayyash M., Sheban D., Bayerl J., Aguilera-Castrejon A., Massarwa R., Maza I., Hanna S., Stelzer Y., Ulitsky I., Greenleaf W. J., Tanay A., Trumpp A., Amit I., Pilpel Y., Novershtern N. & Hanna J. H. (2019), Cell Stem Cell. 24, 2, p. 328-341.e9
  • A niche-dependent myeloid transcriptome signature defines dormant myeloma cells

    Authors: Khoo W. H., Ledergor G., Weiner A., Roden D. L., Terry R. L., McDonald M. M., Chai R. C., De Veirman K., Owen K. L., Opperman K. S., Vandyke K., Clark J. R., Seckinger A., Kovacic N., Nguyen A., Mohanty S. T., Pettitt J. A., Xiao Y., Corr A. P., Seeliger C., Novotny M., Lasken R. S., Nguyen T., Oyajobi B. O., Aftab D., Swarbrick A., Parker B., Hewett D. R., Hose D., Vanderkerken K., Zannettino A. C. W., Amit I., Phan T. G. & Croucher P. (2019), Blood. 134, 1, p. 30-43
  • Widespread Utilization of Peptide Communication in Phages Infecting Soil and Pathogenic Bacteria

    Authors: Stokar-Avihail A., Tal N., Erez Z., Lopatina A. & Sorek R. (2019), Cell Host & Microbe. 25, 5, p. 746-755.e5
  • Potential roles of gut microbiome and metabolites in modulating ALS in mice

    Authors: Blacher E., Bashiardes S., Shapiro H., Rothschild D., Mor U., Dori-Bachash M., Kleimeyer C., Moresi C., Harnik Y., Zur M., Zabari M., Brik R. B., Kviatcovsky D., Zmora N., Cohen Y., Bar N., Levi I., Amar N., Mehlman T., Brandis A., Biton I., Kuperman Y., Tsoory M., Alfahel L., Harmelin A., Schwartz M., Israelson A., Arike L., Johansson M. E. V., Hansson G. C., Gotkine M., Segal E. & Elinav E. (2019), Nature. 572, 7770, p. 474-480
  • Long Noncoding RNA MALAT1 Regulates Cancer Glucose Metabolism by Enhancing mTOR-Mediated Translation of TCF7L2

    Authors: Malakar P., Stein I., Saragovi A., Winkler R., Stern-Ginossar N., Berger M., Pikarsky E. & Karni R. (2019), Cancer Research. 79, 10, p. 2480-2493
  • Sybil-Resilient Conductance-Based Community Growth

    Authors: Poupko O., Shahaf G., Shapiro E. & Talmon N. (2019), COMPUTER SCIENCE - THEORY AND APPLICATIONS. p. 359-371 (trueLecture Notes in Computer Science).
  • MetaCell: analysis of single-cell RNA-seq data using K-nn graph partitions

    Authors: Baran Y., Bercovich A., Sebe-Pedros A., Lubling Y., Giladi A., Chomsky E., Meir Z., Hoichman M., Lifshitz A. & Tanay A. (2019), GENOME BIOLOGY. 20, 1, 206
  • Pooled clone collections by multiplexed CRISPR-Cas12a-assisted gene tagging in yeast

    Authors: Buchmullen B. C., Herbst K., Meurer M., Kirrmaier D., Sass E., Levy E. D. & Knop M. (2019), Nature Communications. 10, 2960
  • The global mass and average rate of rubisco

  • The cancer microbiome

    Authors: Elinav E., Garrett W. S., Trinchieri G. & Wargo J. (2019), Nature Reviews Cancer. 19, 7, p. 371-376
  • A rhlI 5' UTR-Derived sRNA Regulates RhlR-Dependent Quorum Sensing in Pseudomonas aeruginosa

    Authors: Thomason M. K., Voichek M., Dar D., Addis V., Fitzgerald D., Gottesman S., Sorek R. & Greenberga E. P. (2019), mBio. 10, 5, e02253-19
  • Evolthon: A community endeavor to evolve lab evolution

    Authors: Kaminski Strauss S., Schirman D., Jona G., Brooks A. N., Kunjapur A. M., Ba A. N. N., Flint A., Solt A., Mershin A., Dixit A., Yona A. H., Csorgo B., Busby B. P., Hennig B. P., Pal C., Schraivogel D., Schultz D., Wernick D. G., Agashe D., Levi D., Zabezhinsky D., Russ D., Sass E., Tamar E., Herz E., Levy E. D., Church G. M., Yelin I., Nachman I., Gerst J. E., Georgeson J. M., Adamala K. P., Steinmetz L. M., Ruebsam M., Ralser M., Klutstein M., Desai M. M., Walunjkar N., Yin N., Hefetz N. A., Jakimo N., Snitser O., Adini O., Kumar P., Smith R. S. H., Zeidan R., Hazan R., Rak R., Kishony R., Johnson S., Nouriel S., Vonesch S. C., Foster S., Dagan T., Wein T., Karydis T., Wannier T. M., Stiles T., Olin-Sandoval V., Mueller W. F., Bar-On Y. M., Dahan O. & Pilpel Y. (2019), PLoS Biology. 17, 3, e3000182
  • PD-1/PD-L1 checkpoint blockade harnesses monocyte-derived macrophages to combat cognitive impairment in a tauopathy mouse model

    Authors: Rosenzweig N., Dvir-Szternfeld R., Tsitsou-Kampeli A., Keren-Shaul H., Ben-Yehuda H., Weill-Raynal P., Cahalon L., Kertser A., Baruch K., Amit I., Weiner A. & Schwartz M. (2019), Nature Communications. 10, 465
  • Noise-precision tradeoff in predicting combinations of mutations and drugs

    Authors: Tendler A., Zimmer A., Mayo A. & Alon U. (2019), PLoS Computational Biology. 15, 5, 1006956
  • Leukocyte-specific siRNA delivery revealing IRF8 as a potential anti-inflammatory target

    Authors: Veiga N., Goldsmith M., Diesendruck Y., Ramishetti S., Rosenblum D., Elinav E., Behlke M. A., Benhar I. & Peer D. (2019), Journal of Controlled Release. 313, p. 33-41
  • Transcriptional Heterogeneity of Beta Cells in the Intact Pancreas

    Authors: Farack L., Golan M., Egozi A., Dezorella N., Halpern K. B., Ben-Moshe S., Garzilli I., Toth B., Roitman L., Krizhanovsky V. & Itzkovitz S. (2019), Developmental Cell. 48, 1, p. 115-125
  • Infinite Assembly of Folded Proteins in Evolution, Disease, and Engineering

    Authors: Garcia-Seisdedos H., Villegas J. A. & Levy E. D. (2019), Angewandte Chemie - International Edition. 58, 17, p. 5514-5531
  • Central dogma rates and the trade-off between precision and economy in gene expression

    Authors: Hausser J., Mayo A., Keren L. & Alon U. (2019), Nature Communications. 10, 68
  • Successful Brincidofovir Treatment of Metagenomics-detected Adenovirus Infection in a Severely Ill Signal Transducer and Activator of Transcription-1-deficient Patient

    Authors: Averbuch D., Safadi R., Dar D., Wolf D., Cherniak M., Sorek R. & Amit S. (2019), Pediatric Infectious Disease Journal. 38, 3, p. 297-299
  • Systematic interrogation of human promoters

    Authors: Weingarten-Gabbay S., Nir R., Lubliner S., Sharon E., Kalma Y., Weinberger A. & Segal E. (2019), Genome Research. 29, 2, p. 171-183
  • Revisiting Trade-offs between Rubisco Kinetic Parameters

    Authors: Flamholz A., Prywes N., Moran U., David D., Bar-On Y. M., Oltrogge L. M., Alves R., Savage D. & Milo R. (2019), Biochemistry. 58, 31, p. 3365-3376
  • Coming together to define membrane contact sites

    Authors: Scorrano L., De Matteis M. A., Emr S., Giordano F., Hajnoczky G., Kornmann B., Lackner L. L., Levine T. P., Pellegrini L., Reinisch K., Rizzuto R., Simmen T., Stenmark H., Ungermann C. & Schuldiner M. (2019), Nature Communications. 10, 1, 1287
  • Translational Regulation of Pmt1 and Pmt2 by Bfr1 Affects Unfolded Protein O-Mannosylation

    Authors: Castells-Ballester J., Rinis N., Kotan I., Gal L., Bausewein D., Kats I., Zatorska E., Kramer G., Bukau B., Schuldiner M. & Strahl S. (2019), International Journal of Molecular Sciences. 20, 24, 6220
  • Identity domains capture individual differences from across the behavioral repertoire

    Authors: Forkosh O., Karamihalev S., Roeh S., Alon U., Anpilov S., Touma C., Nussbaumer M., Flachskamm C., Kaplick P. M., Shemesh Y. & Chen A. (2019), Nature Neuroscience. 22, 12, p. 2023-2028
  • Personalized Nutrition: Are We There Yet?

    Authors: Bashiardes S., Abdeen S. K. & Elinav E. (2019), Journal of Pediatric Gastroenterology and Nutrition. 69, 6, p. 633-638
  • Overexpression of branched-chain amino acid aminotransferases rescues the growth defects of cells lacking the Barth syndrome-related gene TAZ1

    Authors: Antunes D., Chowdhury A., Aich A., Saladi S., Harpaz N., Stahl M., Schuldiner M., Herrmann J. M., Rehling P. & Rapaport D. (2019), Journal Of Molecular Medicine-Jmm. 97, 2, p. 269-279
  • The role of the microbiome in NAFLD and NASH

    Authors: Kolodziejczyk A. A., Zheng D., Shibolet O. & Elinav E. (2019), EMBO Molecular Medicine. 11, 2, e9302
  • Dysfunctional CD8 T Cells Form a Proliferative, Dynamically Regulated Compartment within Human Melanoma

    Authors: Li H., van der Leun A. M., Yofe I., Lubling Y., Gelbard-Solodkin D., van Akkooi A. C. J., van den Braber M., Rozeman E. A., Haanen J. B. A. G., Blank C. U., Horlings H. M., David E., Baran Y., Bercovich A., Lifshitz A., Schumacher T. N., Tanay A. & Amit I. (2019), Cell. 176, 4, p. 775-789.e18
  • Noncoding RNA: Aging well with Norad

    Authors: Marques F. C. & Ulitsky I. (2019), eLife. 8, 45974
  • Misincorporation signatures for detecting modifications in mRNA: Not as simple as it sounds

    Authors: Sas-Chen A. & Schwartz S. (2019), Methods. 156, p. 53-59
  • The rationale and design of the personal diet study, a randomized clinical trial evaluating a personalized approach to weight loss in individuals with pre-diabetes and early-stage type 2 diabetes

    Authors: Popp C. J., St-Jules D. E., Hu L., Ganguzza L., Illiano P., Curran M., Li H., Schoenthaler A., Bergman M., Schmidt A. M., Segal E., Godneva A. & Sevick M. A. (2019), Contemporary Clinical Trials. 79, p. 80-88
  • Disease-causing mutations in subunits of OXPHOS complex I affect certain physical interactions

    Authors: Barshad G., Zlotnikov-Poznianski N., Gal L., Schuldiner M. & Mishmar D. (2019), Scientific Reports. 9, 1, 9987
  • The Human-Specific and Smooth Muscle Cell-Enriched LncRNA SMILR Promotes Proliferation by Regulating Mitotic CENPF mRNA and Drives Cell-Cycle Progression Which Can Be Targeted to Limit Vascular Remodeling

    Authors: Mahmoud A. D., Ballantyne M. D., Miscianinov V., Pinel K., Hung J., Scanlon J. P., Iyinikkel J., Kaczynski J., Tavares A. S., Bradshaw A. C., Mills N. L., Newby D. E., Caporali A., Gould G. W., George S. J., Ulitsky I., Sluimer J. C., Rodor J. & Baker A. H. (2019), Circulation Research. 125, 5, p. 535-551
  • In-cell identification and measurement of RNA-protein interactions

    Authors: Graindorge A., Pinheiro I., Nawrocka A., Mallory A. C., Tsvetkov P., Gil N., Carolis C., Buchholz F., Ulitsky I., Heard E., Taipale M. & Shkumatava A. (2019), Nature Communications. 10, 1, p. 5317, 5317
  • Deciphering the "m6A Code" via Antibody-Independent Quantitative Profiling

    Authors: Garcia-Campos M. A., Edelheit S., Toth U., Safra M., Shachar R., Viukov S., Winkler R., Nir R., Lasman L., Brandis A., Hanna J. H., Rossmanith W. & Schwartz S. (2019), Cell. 178, 3, p. 731-747
  • c-Met activation leads to the establishment of a TGFβ-receptor regulatory network in bladder cancer progression

    Authors: Sim W. J., Iyengar P. V., Lama D., Lui S. K. L., Ng H. C., Haviv-Shapira L., Domany E., Kappei D., Tan T. Z., Saie A., Jaynes P. W., Verma C. S., Kumar A. P., Rouanne M., Ha H. K., Radulescu C., ten Dijke P., Eichhorn P. J. A. & Thiery J. P. (2019), Nature Communications. 10, 4349
  • Cytotoxicity of 1-deoxysphingolipid unraveled by genome-wide genetic screens and lipidomics in Saccharomyces cerevisiae

    Authors: Haribowo A. G., Hannich J. T., Michel A. H., Megyeri M., Schuldiner M., Kornmann B. & Riezman H. (2019), Molecular Biology of the Cell. 30, 22, p. 2814-2826
  • Generation of Human Primordial Germ Cell-like Cells at the Surface of Embryoid Bodies from Primed-pluripotency Induced Pluripotent Stem Cells

    Authors: Mitsunaga S., Shioda K., Isselbacher K. J., Hanna J. H. & Shioda T. (2019), Jove-Journal Of Visualized Experiments. 143, e58297
  • Long noncoding RNAs in development and regeneration of the neural lineage

    Authors: Hezroni H., Perry R. B. T. & Ulitsky I. (2019), Cold Spring Harbor Symposia on Quantitative Biology. 84, p. 165-177
  • Pro-inflammatory Cytokines Alter the Immunopeptidome Landscape by Modulation of HLA-B Expression

    Authors: Javitt A., Barnea E., Kramer M. P., Wolf-Levy H., Levin Y., Admon A. & Merbl Y. (2019), Frontiers in Immunology. 10, 10, 141
  • Structural variation in the gut microbiome associates with host health

    Authors: Zeevi D., Korem T., Godneva A., Bar N., Kurilshikov A., Lotan-Pompan M., Weinberger A., Fu J., Wijmenga C., Zhernakova A. & Segal E. (2019), Nature. 568, 7750, p. 43-48
  • Dissecting splicing decisions and cell-to-cell variability with designed sequence libraries

    Authors: Mikl M., Hamburg A., Pilpel Y. & Segal E. (2019), Nature Communications. 10, 4572
  • Transfer of the Septin Ring to Cytokinetic Remnants in ER Stress Directs Age-Sensitive Cell-Cycle Re-entry

    Authors: Chao J. T., Pina F., Onishi M., Cohen Y., Lai Y., Schuldiner M. & Niwa M. (2019), Developmental Cell. 51, 2, p. 173-191
  • High-throughput ultrastructure screening using electron microscopy and fluorescent barcoding

    Authors: Bykov Y. S., Cohen N., Gabrielli N., Manenschijn H., Welsch S., Chlanda P., Kukulski W., Patil K. R., Schuldiner M. & Briggs J. A. G. (2019), Journal of Cell Biology. 218, 8, p. 2797-2811
  • Citrobacter rodentium induces rapid and unique metabolic and inflammatory responses in mice suffering from severe disease

    Authors: Carson D., Barry R., Hopkins E. G. D., Roumeliotis T., Garcia-Weber D., Mullineaux-Sanders C., Elinav E., Arrieumerlou C., Choudhary J. S. & Frankel G. (2019), Cellular Microbiology. 1, 13126
  • Dynamic lineage priming is driven via direct enhancer regulation by ERK

    Authors: Hamilton W. B., Mosesson Y., Monteiro R. S., Emdal K. B., Knudsen T. E., Francavilla C., Barkai N., Olsen J. V. & Brickman J. M. (2019), Nature. 575, 7782, p. 355-360
  • Vaginal microbiome transplantation in women with intractable bacterial vaginosis

    Authors: Lev-Sagie A., Goldman-Wohl D., Cohen Y., Dori-Bachash M., Leshem A., Mor U., Strahilevitz J., Moses A. E., Shapiro H., Yagel S. & Elinav E. (2019), Nature Medicine. 25, 10, p. 1500-1504
  • Hybridization-based capture of pathogen mRNA enables paired host-pathogen transcriptional analysis

    Authors: Betin V., Penaranda C., Bandyopadhyay N., Yang R., Abitua A., Bhattacharyya R. P., Fan A., Avraham R., Livny J., Shoresh N. & Hung D. T. (2019), Scientific Reports. 9, 1, 19244
  • MARS-seq2.0: an experimental and analytical pipeline for indexed sorting combined with single-cell RNA sequencing

    Authors: Keren-Shaul H., Kenigsberg E., Jaitin D. A., David E., Paul F., Tanay A. & Amit I. (2019), Nature Protocols. 14, 6, p. 1841-1862
  • Compartmentalized Synthesis of Triacylglycerol at the Inner Nuclear Membrane Regulates Nuclear Organization

    Authors: Barbosa A. D., Lim K., Mari M., Edgar J. R., Gal L., Sterk P., Jenkins B. J., Koulman A., Savage D. B., Schuldiner M., Reggiori F., Wigge P. A. & Siniossoglou S. (2019), Developmental Cell. 50, 6, p. 755-766
  • Global views of proteasome-mediated degradation by mass spectrometry

    Authors: Javitt A. & Merbl Y. (2019), Expert Review of Proteomics. 16, 8, p. 711-716
  • Plasmacytoid dendritic cells develop from Ly6D(+) lymphoid progenitors distinct from the myeloid lineage

    Authors: Dress R. J., Dutertre C., Giladi A., Schlitzer A., Low I., Shadan N. B., Tay A., Lum J., Kairi M. F. B. M., Hwang Y. Y., Becht E., Cheng Y., Chevrier M., Larbi A., Newell E. W., Amit I., Chen J. & Ginhoux F. (2019), Nature Immunology. 20, p. 852-864
  • The Transcriptome of Latent Human Cytomegalovirus

    Authors: Schwartz M. & Stern-Ginossar N. (2019), Journal of Virology. 93, 11, ARTN e0004
  • Geometric description of self-interaction potential in symmetric protein complexes

    Authors: Empereur-Mot C., Garcia-Seisdedos H., Elad N., Dey S. & Levy E. D. (2019), Scientific data. 6, 64
  • Embrace the fat when getting old

    Authors: Adlung L., Amit I. & Elinav E. (2019), AGING-US. 11, 20, p. 8730-8732
  • Predicting bacterial infection outcomes using single cell RNA-sequencing analysis of human immune cells

    Authors: Ben-Moshe N. B., Hen-Avivi S., Levitin N., Yehezkel D., Oosting M., Joosten L. A. B., Netea M. G. & Avraham R. (2019), Nature Communications. 10, 1, 3266
  • Genuine Personal Identifiers and Mutual Sureties for Sybil-Resilient Community Formation

    Authors: Shahaf G., Shapiro E. & Talmon N. (2019), arXiv.
  • DC Respond to Cognate T Cell Interaction in the Antigen-Challenged Lymph Node

    Authors: Curato C., Bernshtein B., Zupancic E., Dufner A., Jaitin D., Giladi A., David E., Chappell-Maor L., Leshkowitz D., Knobeloch K., Amit I., Florindo H. F. & Jung S. (2019), Frontiers in Immunology. 10, APR, 863
  • Diet-microbiota interactions and personalized nutrition

    Authors: Kolodziejczyk A. A., Zheng D. & Elinav E. (2019), Nature Reviews Microbiology. 17, 12, p. 742-753
  • A Significant Expansion of Our Understanding of the Composition of the Human Microbiome

    Authors: Leviatan S. & Segal E. (2019), mSystems. 4, 1, e00010-19
  • Toward unrestricted use of public genomic data: Publication interests should not limit access to public data

    Authors: Amann R. I., Baichoo S., Blencowe B. J., Bork P., Borodovsky M., Brooksbank C., Chain P. S. G., Colwell R. R., Daffonchio D. G., Danchin A., de Lorenzo V., Dorrestein P. C., Finn R. D., Fraser C. M., Gilbert J. A., Hallam S. J., Hugenholtz P., Ioannidis J. P. A., Jansson J. K., Kim J. F., Klenk H., Klotz M. G., Knight R., Konstantinidis K. T., Kyrpides N. C., Mason C. E., McHardy A. C., Meyer F., Ouzounis C. A., Patrinos A. A. N., Podar M., Pollard K. S., Ravel J., Munoz A. R., Roberts R. J., Rossello-Mora R., Sansone S., Schloss P. D., Schriml L. M., Setubal J. C., Sorek R., Stevens R. L., Tiedje J. M., Turjanski A., Tyson G. W., Ussery D. W., Weinstock G. M., White O., Whitman W. B. & Xenarios I. (2019), Science. 363, 6425, p. 350-352
  • Cross-Species Single-Cell Analysis Reveals Divergence of the Primate Microglia Program

    Authors: Geirsdottir L., David E., Keren-Shaul H., Weiner A., Bohlen S. C., Neuber J., Balic A., Giladi A., Sheban F., Dutertre C., Pfeifle C., Peri F., Raffo-Romero A., Vizioli J., Matiasek K., Scheiwe C., Meckel S., Maetz-Rensing K., van der Meer F., Thormodsson F. R., Stadelmann C., Zilkha N., Kimchi T., Ginhoux F., Ulitsky I., Erny D., Amit I. & Prinz M. (2019), Cell. 179, 7, p. 1609-1622.e16
  • Protein Abundance Biases the Amino Acid Composition of Disordered Regions to Minimize Non-functional Interactions

    Authors: Dubreuil B., Matalon O. & Levy E. D. (2019), Journal of Molecular Biology. 431, 24, p. 4978-4992
  • Microbiome diurnal rhythmicity and its impact on host physiology and disease risk

    Authors: Nobs S. P., Tuganbaev T. & Elinav E. (2019), EMBO Reports. 20, 4, e47129
  • Cytokine sensitivity screening highlights BMP4 pathway signaling as a therapeutic opportunity in ER+ breast cancer

    Authors: Shee K., Jiang A., Varn F. S., Liu S., Traphagen N. A., Owens P., Ma C. X., Hoog J., Cheng C., Golub T. R., Straussman R. & Miller T. W. (2019), FASEB Journal. 33, 2, p. 1644-1657
  • Stem Cell-Derived Human Gametes: The Public Engagement Imperative

    Authors: Adashi E. Y., Cohen I. G., Hanna J. H., Surani A. M. & Hayashi K. (2019), Trends in Molecular Medicine. 25, 3, p. 165-167
  • Regulation of CHD2 expression by the Chaserr long noncoding RNA gene is essential for viability

    Authors: Rom A., Melamed L., Gil N., Goldrich M. J., Kadir R., Golan M., Biton I., Perry R. B. & Ulitsky I. (2019), Nature Communications. 10, 5092
  • Towards a quantitative view of the global ubiquity of biofilms

    Authors: Bar-On Y. M. & Milo R. (2019),
  • Alternative 3 UTRs direct localization of functionally diverse protein isoforms in neuronal compartments

    Authors: Mattioli C. C., Rom A., Franke V., Imami K., Arrey G., Terne M., Woehler A., Akalin A., Ulitsky I. & Chekulaeva M. (2019), Nucleic Acids Research. 47, 5, p. 2560-2573
  • Stage-specific requirement for Mettl3-dependent m(6)A mRNA methylation during haematopoietic stem cell differentiation

    Authors: Lee H., Bao S., Qian Y., Geula S., Leslie J., Zhang C., Hanna J. H. & Ding L. (2019), Nature Cell Biology. 21, p. 700-709
  • The pros, cons, and many unknowns of probiotics

    Authors: Suez J., Zmora N., Segal E. & Elinav E. (2019), Nature Medicine. 25, 5, p. 716-729
  • Erratum: Deciphering the rules by which 5′-UTR sequences affect protein expression in yeast (Proceedings of the National Academy of Sciences of the United States of America (2013) 110 (E2792–E2801) DOI: 10.1073/pnas.1222534110)

    Authors: Dvir S., Velten L., Sharon E., Zeevi D., Carey L. B., Weinberger A. & Segal E. (2019), Proceedings of the National Academy of Sciences of the United States of America. 116, 27, p. 13701
  • When Cultures Meet: The Landscape of "Social" Interactions between the Host and Its Indigenous Microbes

    Authors: Geva-Zatorsky N., Elinav E. & Pettersson S. (2019), BioEssays. 41, 1900002
  • IL-23-producing IL-10Rα-deficient gut macrophages elicit an IL-22-driven proinflammatory epithelial cell response

    Authors: Bernshtein B., Curato C., Ioannou M., Thaiss C. A., Gross-Vered M., Kolesnikov M., Wang Q., David E., Chappell-Maor L., Harmelin A., Elinav E., Thakker P., Papayannopoulos V. & Jung S. (2019), Science immunology. 4, 36, 6571
  • Fecal Microbial Transplantation and Its Potential Application in Cardiometabolic Syndrome

    Authors: Leshem A., Horesh N. & Elinav E. (2019), Frontiers in Immunology. 10, 1341
  • The Biomass Composition of the Oceans: A Blueprint of Our Blue Planet

    Authors: Bar-On Y. M. & Milo R. (2019), Cell. 179, 7, p. 1451-1454
  • Dynamics of Spaetzle morphogen shuttling in the Drosophila embryo shapes gastrulation patterning

    Authors: Rahimi N., Averbukh I., Carmon S., Schejter E. D., Barkai N. & Shilo B. (2019), Development. 146, 21, 181487
  • m6A modification controls the innate immune response to infection by targeting type I interferons

    Authors: Winkler R., Gillis E., Lasman L., Safra M., Geula S., Soyris C., Nachshon A., Tai-Schmiedel J., Friedman N., Le-Trilling V. T. K., Trilling M., Mandelboim M., Hanna J. H., Schwartz S. & Stern-Ginossar N. (2019), Nature Immunology. 20, 2, p. 173-182
  • An iPSC-Derived Myeloid Lineage Model of Herpes Virus Latency and Reactivation

    Authors: Poole E., Huang C. J. Z., Forbester J., Shnayder M., Nachshon A., Kweider B., Basaj A., Smith D., Jackson S. E., Liu B., Shih J., Kiskin F. N., Roche K., Murphy E., Wills M. R., Morrell N. W., Dougan G., Stern-Ginossar N., Rana A. A. & Sinclair J. (2019), Frontiers in Microbiology. 10, 2233
  • You are what you eat: diet, health and the gut microbiota

    Authors: Zmora N., Suez J. & Elinav E. (2019), Nature Reviews Gastroenterology and Hepatology. 16, 1, p. 35-56
  • Children's Object Structure Perspective-Taking: Training and Assessment

  • A conversation with Igor Ulitsky

    Authors: Ulitsky I. (2019),
  • Transmissible inflammation-induced colorectal cancer in inflammasome-deficient mice

    Authors: Hu B., Friedman G., Elinav E. & Flavell R. A. (2019), OncoImmunology. 8, 10, 981995
  • The N-6-Methyladenosine mRNA Methylase METTL3 Controls Cardiac Homeostasis and Hypertrophy

    Authors: Dorn L. E., Lasman L., Chen J., Xu X., Hund T. J., Medvedovic M., Hanna J. H., van Berlo J. H. & Accornero F. (2019), Circulation. 139, 4, p. 533-545
  • Corticosteroid signaling at the brain-immune interface impedes coping with severe psychological stress

    Authors: Kertser A., Baruch K., Deczkowska A., Weiner A., Croese T., Kenigsbuch M., Cooper I., Tsoory M., Ben-Hamo S., Amit I. & Schwartz M. (2019), Science Advances. 5, 5, aav4111
  • Translational Control in Virus-Infected Cells

    Authors: Stern-Ginossar N., Thompson S. R., Mathews M. B. & Mohr I. (2019), Cold Spring Harbor perspectives in biology. 11, 3, a033001
  • Yeast ceramide synthases, Lag1 and Lac1, have distinct substrate specificity

    Authors: Megyeri M., Prasad R., Volpert G., Sliwa-Gonzalez A., Haribowo A. G., Aguilera-Romero A., Riezman H., Barral Y., Futerman A. H. & Schuldiner M. (2019), Journal of Cell Science. 132, jcs228411
  • Mutual interplay between IL-17–producing γδT cells and microbiota orchestrates oral mucosal homeostasis

    Authors: Wilharm A., Tabib Y., Nassar M., Reinhardt A., Mizraji G., Sandrock I., Heyman O., Barros-Martins J., Aizenbud Y., Khalaileh A., Eli-Berchoer L., Elinav E., Wilensky A., Foerster R., Bercovier H., Prinz I. & Hovav A. (2019), Proceedings Of The National Academy Of Sciences Of The United States Of America-Physical Sciences. 116, 7, p. 2652-2661
  • Germline NPM1 mutations lead to altered rRNA 2 '-O-methylation and cause dyskeratosis congenita

    Authors: Nachmani D., Bothmer A. H., Grisendi S., Mele A., Bothmer D., Lee J. D., Monteleone E., Cheng K., Zhang Y., Bester A. C., Guzzetti A., Mitchell C. A., Mendez L. M., Pozdnyakova O., Sportoletti P., Martelli M., Vulliamy T. J., Safra M., Schwartz S., Luzzatto L., Bluteau O., Soulier J., Darnell R. B., Falini B., Dokal I., Ito K., Clohessy J. G. & Pandolfi P. P. (2019), Nature Genetics. 51, 10, p. 1518-1529
  • Protein Topology Prediction Algorithms Systematically Investigated in the Yeast Saccharomyces cerevisiae

    Authors: Weill U., Cohen N., Fadel A., Ben-Dor S. & Schuldiner M. (2019), BioEssays. 41, 8, 1800252
  • Endothelial function and dysfunction in the cardiovascular system: the long non-coding road

    Authors: Monteiro J. P., Bennett M., Rodor J., Caudrillier A., Ulitsky I. & Baker A. H. (2019), Cardiovascular Research. 115, 12, p. 1692-1704
  • Harnessing the microbiota for therapeutic purposes

    Authors: Liwinski T. & Elinav E. (2019), American Journal of Transplantation. 20, 6, p. 1482-1488
  • Cyclic GMP-AMP signalling protects bacteria against viral infection

    Authors: Cohen D., Melamed S., Millman A., Shulman G., Oppenheimer-Shaanan Y., Kacen A., Doron S., Amitai G. & Sorek R. (2019), Nature. 574, 7780, p. 691-695
  • Accurate detection of m6A RNA modifications in native RNA sequences

    Authors: Liu H., Begik O., Lucas M. C., Ramirez J. M., Mason C. E., Wiener D., Schwartz S., Mattick J. S., Smith M. A. & Novoa E. M. (2019), Nature Communications. 10, 1, 4079
  • ETS Proteins Bind with Glucocorticoid Receptors: Relevance for Treatment of Ewing Sarcoma

    Authors: Srivastava S., Nataraj N. B., Sekar A., Ghosh S., Bornstein C., Drago-Garcia D., Roth L., Romaniello D., Marrocco I., David E., Gilad Y., Lauriola M., Rotkopf R., Kimchi A., Haga Y., Tsutsumi Y., Mirabeau O., Surdez D., Zinovyev A., Delattre O., Kovar H., Amit I. & Yarden Y. (2019), Cell Reports. 29, 1, p. 104-117
  • Evolution of intron splicing towards optimized gene expression is based on various Cis- and Trans-molecular mechanisms

    Authors: Frumkin I., Yofe I., Bar-Ziv R., Gurvich Y., Lu Y., Voichek Y., Towers R., Schirman D., Krebber H. & Pilpel Y. (2019), PLoS Biology. 17, 8, e3000423
  • Tumor Microbiome Diversity and Composition Influence Pancreatic Cancer Outcomes

    Authors: Riquelme E., Zhang Y., Zhang L., Montiel M., Zoltan M., Dong W., Quesada P., Sahin I., Chandra V., San Lucas A., Scheet P., Xu H., Hanash S. M., Feng L., Burks J. K., Do K., Peterson C. B., Nejman D., Tzeng C. D., Kim M. P., Sears C. L., Ajami N., Petrosino J., Wood L. D., Maitra A., Straussman R., Katz M., White J. R., Jenq R., Wargo J. & McAllister F. (2019), Cell. 178, 4, p. 795-806, e1-e12
  • Deletion of a Csf1r enhancer selectively impacts CSF1R expression and development of tissue macrophage populations

    Authors: Rojo R., Raper A., Ozdemir D. D., Lefevre L., Grabert K., Wollscheid-Lengeling E., Bradford B., Caruso M., Gazova I., Sanchez A., Lisowski Z. M., Alves J., Molina-Gonzalez I., Davtyan H., Lodge R. J., Glover J. D., Wallace R., Munro D. A. D., David E., Amit I., Miron V. E., Priller J., Jenkins S. J., Hardingham G. E., Blurton-Jones M., Mabbott N. A., Summers K. M., Hohenstein P., Hume D. A. & Pridans C. (2019), Nature Communications. 10, 1, 3215
  • Universally non-immunogenic iPSCs

    Authors: Shani T. & Hanna J. H. (2019), Nature Biomedical Engineering. 3, 5, p. 337-338
  • Sequence determinants of polyadenylation-mediated regulation

    Authors: Slutskin I. V., Weinberger A. & Segal E. (2019), Genome Research. 29, 10, p. 1635-1647
  • Spatial sorting enables comprehensive characterization of liver zonation

    Authors: Ben-Moshe S., Shapira Y., Moor A. E., Manco R., Veg T., Halpern K. B. & Itzkovitz S. (2019), Nature metabolism. 1, p. 899-911
  • A transcriptome-wide analysis deciphers distinct roles of G1 cyclins in temporal organization of the yeast cell cycle

    Authors: Teufel L., Tummler K., Floettmann M., Herrmann A., Barkai N. & Klipp E. (2019), Scientific Reports. 9, 3343
  • Promethin Is a Conserved Seipin Partner Protein

    Authors: Castro I. G., Eisenberg-Bord M., Persiani E., Rochford J. J., Schuldiner M. & Bohnert M. (2019), Cells. 8, 3, 268
  • An introduction to systems biology: design principles of biological circuits

    Authors: Alon U. (2019), 2nd edition ed.
  • Single-Cell Analysis of Diverse Pathogen Responses Defines a Molecular Roadmap for Generating Antigen-Specific Immunity

    Authors: Blecher-Gonen R., Bost P., Hilligan K. L., David E., Salame T. M., Roussel E., Connor L. M., Mayer J. U., Halpern K. B., Toth B., Itzkovitz S., Schwikowski B., Ronchese F. & Amit I. (2019), Cell Systems. 8, 2, p. 109-121.e6
  • The integrated stress response promotes B7H6 expression

    Authors: Obiedat A., Charpak-Amikam Y., Tai-Schmiedel J., Seidel E., Mahameed M., Avril T., Stern-Ginossar N., Springuel L., Bolsee J., Gilham D. E., Dipta P., Shmuel M., Chevet E., Mandelboim O. & Tirosh B. (2019), Journal of Molecular Medicine. 98, 1, p. 135-148
  • Assessment of GFP Tag Position on Protein Localization and Growth Fitness in Yeast

    Authors: Weill U., Krieger G., Avihou Z., Milo R., Schuldiner M. & Davidi D. (2019), Journal of Molecular Biology. 431, 3, p. 636-641
  • Aggregation over Metric Spaces: Proposing and Voting in Elections, Budgeting, and Legislation

    Authors: Shahaf G., Shapiro E. & Talmon N. (2019), ALGORITHMIC DECISION THEORY (ADT 2019). p. 172-174
  • Transforming medicine with the microbiome

    Authors: Zmora N., Soffer E. & Elinav E. (2019), Science Translational Medicine. 11, 477, eaaw1815
  • The EXPANDER Integrated Platform for Transcriptome Analysis

    Authors: Hait T. A., Maron-Katz A., Sagir D., Amar D., Ulitsky I., Linhart C., Tanay A., Sharan R., Shiloh Y., Elkon R. & Shamir R. (2019), Journal of Molecular Biology. 431, 13, p. 2398-2406
  • Cell composition analysis of bulk genomics using single-cell data

    Authors: Frishberg A., Peshes-Yaloz N., Cohn O., Rosentul D., Steuerman Y., Valadarsky L., Yankovitz G., Mandelboim M., Iraqi F. A., Amit I., Mayo L., Bacharach E. & Gat-Viks I. (2019), Nature Methods. 16, 4, p. 327-332
  • Global DNA methylation reflects spatial heterogeneity and molecular evolution of lung adenocarcinomas

    Authors: Dietz S., Lifshitz A., Kazdal D., Harms A., Endris V., Winter H., Stenzinger A., Warth A., Sill M., Tanay A. & Sueltmann H. (2019), International Journal of Cancer. 144, 5, p. 1061-1072
  • The gut microbiota regulates white adipose tissue inflammation and obesity via a family of microRNAs

    Authors: Virtue A. T., McCright S. J., Wright J. M., Jimenez M. T., Mowel W. K., Kotzin J. J., Joannas L., Basavappa M. G., Spencer S. P., Clark M. L., Eisennagel S. H., Williams A., Levy M., Manne S., Henrickson S. E., Wherry E. J., Thaiss C. A., Elinav E. & Henao-Mejia J. (2019), Science Translational Medicine. 11, 496, 1892
  • A secretion-enhancing cis regulatory targeting element (SECReTE) involved in mRNA localization and protein synthesis

    Authors: Cohen-Zontag O., Baez C., Lim L. Q. J., Olender T., Schirman D., Dahary D., Pilpel Y. & Gerst J. E. (2019), PLoS Genetics. 15, 7, e1008248
  • Acid-Induced Downregulation of ASS1 Contributes to the Maintenance of Intracellular pH in Cancer

    Authors: Silberman A., Goldman O., Assayag O. B., Jacob A., Rabinovich S., Adler L., Lee J. S., Keshet R., Sarver A., Frug J., Stettner N., Galai S., Persi E., Halpern K. B., Zaltsman-Amir Y., Pode-Shakked B., Eilam R., Anikster Y., Nagamani S. C. S., Ulitsky I., Ruppin E. & Erez A. (2019), Cancer Research. 79, 3, p. 518-533
  • Short tandem repeat stutter model inferred from direct measurement of in vitro stutter noise

    Authors: Raz O., Biezuner T., Spiro A., Amir S., Milo L., Titelman A., Onn A., Chapal-Ilani N., Tao L., Marx T., Feige U. & Shapiro E. (2019), Nucleic Acids Research. 47, 5, p. 2436-2445
  • Prediction of ultra-high-order antibiotic combinations based on pairwise interactions

    Authors: Katzir I., Cokol M., Aldridge B. B. & Alon U. (2019), PLoS Computational Biology. 15, 1, 1006774
  • Walk on the wildling side

    Authors: Nobs S. P. & Elinav E. (2019), Science. 365, 6452, p. 444-445
  • Continuum of Gene-Expression Profiles Provides Spatial Division of Labor within a Differentiated Cell Type

    Authors: Adler M., Kohanim Y. K., Tendler A., Mayo A. & Alon U. (2019), Cell Systems. 8, 1, p. 43-52.e5
  • Phenotypic Screen Identifies JAK2 as a Major Regulator of FAT10 Expression

    Authors: Reznik N., Kozer N., Eisenberg-Lerner A., Barr H., Merbl Y. & London N. (2019), ACS Chemical Biology. 14, 12, p. 2538-2545
  • Rho-Associated Coiled-Coil Kinase 1 Translocates to the Nucleus and Inhibits Human Cytomegalovirus Propagation

    Authors: Eliyahu E., Tirosh O., Dobesova M., Nachshon A., Schwartz M. & Stern-Ginossar N. (2019), Journal of Virology. 93, 19, 00453-19
  • Peer power: A women's peer-mentoring program at the workplace: example from the academia

    Authors: Levy-Tzedek S., Moran G. S., Alon U. & Sal-Man N. (2018), EMBO Reports. 19, 12, e47246
  • Design principles of the paradoxical feedback between pancreatic alpha and beta cells

    Authors: Garzilli I. & Itzkovitz S. (2018), Scientific Reports. 8, 10694
  • Single cell dissection of plasma cell heterogeneity in symptomatic and asymptomatic myeloma

    Authors: Ledergor G., Weiner A., Zada M., Wang S., Cohen Y. C., Gatt M. E., Snir N., Magen H., Koren-Michowitz M., Herzog-Tzarfati K., Keren-Shaul H., Bornstein C., Rotkopf R., Yofe I., David E., Yellapantula V., Kay S., Salai M., Ben Yehuda D., Nagler A., Shvidel L., Orr-Urtreger A., Halpern K. B., Itzkovitz S., Landgren O., San-Miguel J., Paiva B., Keats J. J., Papaemmanuil E., Avivi I., Barbash G. I., Tanay A. & Amit I. (2018), Nature Medicine. 24, 12, p. 1867-1876
  • Microglial immune checkpoint mechanisms

    Authors: Deczkowska A., Amit I. & Schwartz M. (2018), Nature Neuroscience. 21, 6, p. 779-786
  • Environment dominates over host genetics in shaping human gut microbiota

    Authors: Rothschild D., Weissbrod O., Barkan E., Kurilshikov A., Korem T., Zeevi D., Costea P. I., Godneva A., Kalka I. N., Bar N., Shilo S., Lador D., Vila A. V., Zmora N., Pevsner-Fischer M., Israeli D., Kosower N., Malka G., Wolf B. C., Avnit-Sagi T., Lotan-Pompan M., Weinberger A., Halpern Z., Carmi S., Fu J., Wijmenga C., Zhernakova A., Elinav E. & Segal E. (2018), Nature. 555, 7695, p. 210-215
  • Re-evaluating microglia expression profiles using RiboTag and cell isolation strategies

    Authors: Haimon Z., Volaski A., Orthgiess J., Boura-Halfon S., Varol D., Shemer A., Yona S., Zuckerman B., David E., Chappell-Maor L., Bechmann I., Gericke M., Ulitsky I. & Jung S. (2018), Nature Immunology. 19, 6, p. 636-+
  • Does cancer strive to minimize the cost of gene expression?

    Authors: Schirman D., Frumkin I. & Pilpel Y. (2018), Oncotarget. 9, 46, p. 27909-27910
  • Hypercalcemia: a consultant's approach

    Authors: Auron A. & Alon U. S. (2018), Pediatric Nephrology. 33, 9, p. 1475-1488
  • Contemporary Phage Biology: From Classic Models to New Insights

    Authors: Ofir G. & Sorek R. (2018), Cell. 172, 6, p. 1260-1270
  • Viruses cooperate to defeat bacteria

    Authors: Bernheim A. & Sorek R. (2018), Nature. 559, 7715, p. 482-484
  • Endocytosis as a stabilizing mechanism for tissue homeostasis

    Authors: Adler M., Mayo A., Zhou X., Franklin R. A., Jacox J. B., Medzhitov R. & Alon U. (2018), Proceedings Of The National Academy Of Sciences Of The United States Of America-Biological Sciences. 115, 8, p. E1926-E1935
  • HflXr, a homolog of a ribosome-splitting factor, mediates antibiotic resistance

    Authors: Duval M., Dar D., Carvalho F., Rocha E. P. C., Sorek R. & Cossart P. (2018), Proceedings of the National Academy of Sciences of the United States of America. 115, 52, p. 13359-13364
  • mRNA-seq whole transcriptome profiling of fresh frozen versus archived fixed tissues

    Authors: Ben-Moshe N. B., Gilad S., Perry G., Benjamin S., Balint-Lahat N., Pavlovsky A., Halperin S., Markus B., Yosepovich A., Barshack I., Gal-Yam E. N., Domany E., Kaufman B. & Dadiani M. (2018), BMC Genomics. 19, 419
  • Loss of MicroRNA-21 Influences the Gut Microbiota, Causing Reduced Susceptibility in a Murine Model of Colitis

    Authors: Johnston D. G. W., Williams M. A., Thaiss C. A., Cabrera-Rubio R., Raverdeau M., McEntee C., Cotter P. D., Elinav E., O'Neill L. A. J. & Corr S. C. (2018), Journal of Crohn's and Colitis. 12, 7, p. 835-848
  • Sequential BMP7/TGF-beta 1 signaling and microbiota instruct mucosal Langerhans cell differentiation

    Authors: Capucha T., Koren N., Nassar M., Heyman O., Nir T., Levy M., Zilberman-Schapira G., Zelentova K., Eli-Berchoer L., Zenke M., Hieronymus T., Wilensky A., Bercovier H., Elinav E., Clausen B. E. & Hovav A. (2018), Journal of Experimental Medicine. 215, 2, p. 481-500
  • Salient experiences are represented by unique transcriptional signatures in the mouse brain

    Authors: Mukherjee D., Ignatowska-Jankowska B. M., Itskovits E., Gonzales B. J., Turm H., Izakson L., Haritan D., Bleistein N., Cohen C., Amit I., Shay T., Grueter B., Zaslaver A. & Citri A. (2018), eLife. 7, 31220
  • point:: Foundations of Internet-enabled Democracy

    Authors: Shapiro E. (2018), Communications of the ACM. 61, 8, p. 31-34
  • RAS Regulates the Transition from Naive to Primed Pluripotent Stem Cells

    Authors: Altshuler A., Verbuk M., Bhattacharya S., Abramovich I., Haklai R., Hanna J. H., Kloog Y., Gottlieb E. & Shalom-Feuerstein R. (2018), Stem Cell Reports. 10, 3, p. 1088-1101
  • DISARM is a widespread bacterial defence system with broad anti-phage activities

    Authors: Ofir G., Melamed S., Sberro H., Mukamel Z., Silverman S., Yaakov G., Doron S. & Sorek R. (2018), Nature Microbiology. 3, 1, p. 90-98
  • Systematic mapping of contact sites reveals tethers and a function for the peroxisome-mitochondria contact

    Authors: Shai N., Yifrach E., van Roermund C. W. T., Cohen N., Bibi C., Ijlst L., Cavellini L., Meurisse J., Schuster R., Zada L., Mari M. C., Reggiori F. M., Hughes A. L., Escobar-Henriques M., Cohen M. M., Waterham H. R., Wanders R. J. A., Schuldiner M. & Zalckvar E. (2018), Nature Communications. 9, 1, 1761
  • Programming cells and tissues

    Authors: Glass D. S. & Alon U. (2018), Science. 361, 6408, p. 1199-1200
  • PDB-wide identification of biological assemblies from conserved quaternary structure geometry

    Authors: Dey S., Ritchie D. W. & Levy E. D. (2018), Nature Methods. 15, 1, p. 67-72
  • Natural genetic variation for expression of a SWEET transporter among wild species of Solanum lycopersicum (tomato) determines the hexose composition of ripening tomato fruit

    Authors: Shammai A., Petreikov M., Yeselson Y., Faigenboim A., Moy-Komemi M., Cohen S., Cohen D., Besaulov E., Efrati A., Houminer N., Bar M., Ast T., Schuldiner M., Klemens P. A. W., Neuhaus E., Baxter C. J., Rickett D., Bonnet J., White R., Giovannoni J. J., Levin I. & Schaffer A. (2018), Plant Journal. 96, 2, p. 343-357
  • Meiotic Recombination: Genetics' Good Old Scalpel

    Authors: Slomka S. & Pilpel Y. (2018), Cell. 172, 3, p. 391-392
  • Noise-Seeded Developmental Pattern Formation in Filamentous Cyanobacteria

    Authors: Arbel-Goren R., Di Patti F., Fanelli D. & Stavans J. (2018), Life-Basel. 8, 4, 58
  • Translational control of ERK signaling through miRNA/4EHP-directed silencing

    Authors: Jafarnejad S. M., Chapat C., Matta-Camacho E., Gelbart I. A., Hesketh G. G., Arguello M., Garzia A., Kim S., Attig J., Shapiro M., Morita M., Khoutorsky A., Alain T., Christos G. G., Stern-Ginossar N., Tuschl T., Gingras A., Duchaine T. F. & Sonenberg N. (2018), eLife. 7, 35034
  • The biomass distribution on Earth

  • An ER surface retrieval pathway safeguards the import of mitochondrial membrane proteins in yeast

    Authors: Hansen K. G., Aviram N., Laborenz J., Bibi C., Meyer M., Spang A., Schuldiner M. & Herrmann J. M. (2018), Science. 361, 6407, p. 1118-1122
  • Variants in PUS7 Cause Intellectual Disability with Speech Delay, Microcephaly, Short Stature, and Aggressive Behavior

    Authors: De Brouwer A. P. M., Abou Jamra R., Koertel N., Soyris C., Polla D. L., Safra M., Zisso A., Powell C. A., Rebelo-Guiomar P., Dinges N., Morin V., Stock M., Hussain M., Shahzad M., Riazuddin S., Ahmed Z. M., Pfundt R., Schwarz F., de Boer L., Reis A., Grozeva D., Raymond F. L., Riazuddin S., Koolen D. A., Minczuk M., Roignant J., van Bokhoven H. & Schwartz S. (2018), American Journal of Human Genetics. 103, 6, p. 1045-1052
  • Intratumoral bacteria may elicit chemoresistance by metabolizing anticancer agents

    Authors: Geller L. T. & Straussman R. (2018), Molecular and Cellular Oncology. 5, 1, e1405139
  • A repressor-decay timer for robust temporal patterning in embryonic Drosophila neuroblast lineages

    Authors: Averbukh I., Lai S., Doe C. Q. & Barkai N. (2018), eLife. 7, 38631
  • Inferring and using protein quaternary structure information from crystallographic data

  • Evolutionary trade-offs and the structure of polymorphisms

    Authors: Sheftel H., Szekely P., Mayo A., Sella G. & Alon U. (2018), Philosophical Transactions of the Royal Society B: Biological Sciences. 373, 1747, 20170105
  • Dramatic action: A theater-based paradigm for analyzing human interactions

    Authors: Liron Y., Raindel N. & Alon U. (2018), PLoS ONE. 13, 3, e0193404
  • Pax6 regulation of Sox9 in the mouse retinal pigmented epithelium controls its timely differentiation and choroid vasculature development

    Authors: Cohen-Tayar Y., Cohen H., Mitiagin Y., Abravanel Z., Levy C., Idelson M., Reubinoff B., Itzkovitz S., Raviv S., Kaestner K. H., Blinder P., Elkon R. & Ashery-Padan R. (2018), Development. 145, 15, dev163691
  • Sybil-Resilient Reality-Aware Social Choice

    Authors: Shahaf G., Shapiro E. & Talmon N. (2018), arXiv.
  • What Can Immunologists Learn from Systems Approaches?

    Authors: Segal E., Vogl T., Klompus S., Peled-Leviatan S. & Weinberger A. (2018),
  • Incorporating Reality into Social Choice

  • Bile acids in glucose metabolism in health and disease

    Authors: Shapiro H., Kolodziejczyk A. A., Halstuch D. & Elinav E. (2018), Journal of Experimental Medicine. 215, 2, p. 383-396
  • Predicting microRNA targeting efficacy in Drosophila

    Authors: Agarwal V., Subtelny A. O., Thiru P., Ulitsky I. & Bartel D. P. (2018), Genome Biology. 19, 152
  • Therapeutically targeting tumor microenvironment-mediated drug resistance in estrogen receptor-positive breast cancer

    Authors: Shee K., Yang W., Hinds J. W., Hampsch R. A., Varn F. S., Traphagen N. A., Patel K., Cheng C., Jenkins N. P., Kettenbach A. N., Demidenko E., Owens P., Faber A. C., Golub T. R., Straussman R. & Miller T. W. (2018), Journal of Experimental Medicine. 215, 3, p. 895-910
  • Neutralizing Gatad2a-Chd4-Mbd3/NuRD Complex Facilitates Deterministic Induction of Naive Pluripotency

    Authors: Mor N., Rais Y., Sheban D., Peles S., Aguilera-Castrejon A., Zviran A., Elinger D., Viukov S., Geula S., Krupalnik V., Zerbib M., Chomsky E., Lasman L., Shani T., Bayerl J., Gafni O., Hanna S., Buenrostro J. D., Hagai T., Masika H., Vainorius G., Bergman Y., Greenleaf W. J., Esteban M. A., Elling U., Levin Y., Massarwa R., Merbl Y., Novershtern N. & Hanna J. H. (2018), Cell Stem Cell. 23, 3, p. 412-425
  • Role of the gut microbiota in nutrition and health

    Authors: Valdes A. M., Walter L., Segal E. & Spector T. D. (2018), British Medical Journal. 361, 2179
  • Single-Cell Genomics: A Stepping Stone for Future Immunology Discoveries

    Authors: Giladi A. & Amit I. (2018), Cell. 172, 1-2, p. 14-21
  • Temporal Stability of the Healthy Human Skin Microbiome Following Dead Sea Climatotherapy

    Authors: Brandwein M., Fuks G., Israel A., Al-Ashhab A., Nejman D., Straussman R., Hodak E., Harari M., Steinberg D., Bentwich Z., Shental N. & Meshner S. (2018), Acta Dermato-Venereologica. 98, 2, p. 256-261
  • MTCH2-mediated mitochondrial fusion drives exit from naive pluripotency in embryonic stem cells

    Authors: Bahat A., Goldman A., Zaltsman Y., Khan D. H., Halperin C., Amzallag E., Krupalnik V., Mullokandov M., Silberman A., Erez A., Schimmer A. D., Hanna J. H. & Gross A. (2018), Nature Communications. 9, 5132
  • NKp46 Receptor-Mediated Interferon-gamma Production by Natural Killer Cells Increases Fibronectin 1 to Alter Tumor Architecture and Control Metastasis

    Authors: Glasner A., Levi A., Enk J., Isaacson B., Viukov S., Orlanski S., Scope A., Neuman T., Enk C. D., Hanna J. H., Sexl V., Jonjic S., Seliger B., Zitvogel L. & Mandelboim O. (2018), Immunity. 48, 1, p. 107-+
  • The Helix Twist: Damage and Repair Follows the DNA Minor Groove

    Authors: Kotler E. & Segal E. (2018), Cell. 175, 4, p. 902-904
  • YeastRGB: comparing the abundance and localization of yeast proteins across cells and libraries

    Authors: Dubreuil B., Sass E., Nadav Y., Heidenreich M., Georgeson J. M., Weill U., Duan Y., Meurer M., Schuldiner M., Knop M. & Levy E. D. (2018), Nucleic Acids Research. 47, D1, p. D1245-D1249
  • Phospho-regulation of ATOH1 Is Required for Plasticity of Secretory Progenitors and Tissue Regeneration

    Authors: Tomic G., Morrissey E., Kozar S., Ben-Moshe S., Hoyle A., Azzarelli R., Kemp R., Chilamakuri C. S. R., Itzkovitz S., Philpott A. & Winton D. J. (2018), Cell Stem Cell. 23, 3, p. 436-+
  • Bacterial Noncoding RNAs Excised from within Protein-Coding Transcripts

    Authors: Dar D. & Sorek R. (2018), mBio. 9, 5, e01730-18
  • Post-Antibiotic Gut Mucosal Microbiome Reconstitution Is Impaired by Probiotics and Improved by Autologous FMT

    Authors: Suez J., Zmora N., Zilberman-Schapira G., Mor U., Dori-Bachash M., Bashiardes S., Zur M., Regev-Lehavi D., Brik R. B., Federici S., Horn M., Cohen Y., Moor A. E., Zeevi D., Korem T., Kotler E., Harmelin A., Itzkovitz S., Maharshak N., Shibolet O., Pevsner-Fischer M., Shapiro H., Sharon I., Halpern Z., Segal E. & Elinav E. (2018), Cell. 174, 6, p. 1406-1423.e16
  • Virus-Induced Changes in mRNA Secondary Structure Uncover cis-Regulatory Elements that Directly Control Gene Expression

    Authors: Mizrahi O., Nachshon A., Shitrit A., Gelbart I. A., Dobesova M., Brenner S., Kahana C. & Stern-Ginossar N. (2018), Molecular Cell. 72, 5, p. 862-874
  • Immune cell type 'fingerprints' at the basis of outcome diversity of human infection

    Authors: Hen-Avivi S. & Avraham R. (2018), Current Opinion in Microbiology. 42, p. 31-39
  • Lung Single-Cell Signaling Interaction Map Reveals Basophil Role in Macrophage Imprinting

    Authors: Cohen M., Giladi A., Gorki A., Galbard Solodkin D., Zada M., Hladik A., Miklosi A., Salame T., Halpern K. B., David E., Itzkovitz S., Harkany T., Knapp S. & Amit I. (2018), Cell. 175, 4, p. 1031-+
  • A model for 'sustainable' US beef production

    Authors: Eshel G., Shepon A., Shaket T., Cotler B. D., Gilutz S., Giddings D., Raymo M. E. & Milo R. (2018), Nature Ecology and Evolution. 2, 1, p. 81-85
  • Ex-vivo organ culture as potential prioritization tool for breast cancer targeted therapy

    Authors: Grinshpun A., Gavert N., Granit R. Z., Masuri H., Ben-Porath I., Breuer S., Zick A., Rosenberg S., Maoz M., Granit A., Pikarsky E., Straussman R., Peretz T. & Sonnenblick A. (2018), Cancer Biology and Therapy. 19, 8, p. 645-648
  • Production of Spliced Long Noncoding RNAs Specifies Regions with Increased Enhancer Activity

    Authors: Gil N. & Ulitsky I. (2018), Cell Systems. 7, 5, p. Pages 537-547.e3
  • Robust stochastic Turing patterns in the development of a one-dimensional cyanobacterial organism

    Authors: Di Patti F., Lavacchi L., Arbel-Goren R., Schein-Lubomirsky L., Fanelli D. & Stavans J. (2018), PLoS Biology. 16, 5, 2004877
  • Regulation of Neuroregeneration by Long Noncoding RNAs

    Authors: Perry R. B., Hezroni H., Goldrich M. J. & Ulitsky I. (2018), Molecular Cell. 72, 3, p. 553-+, 5
  • Cnidarian Cell Type Diversity and Regulation Revealed by Whole-Organism Single-Cell RNA-Seq

    Authors: Sebe-Pedros A., Saudemont B., Chomsky E., Plessier F., Mailhe M., Renno J., Loe-Mie Y., Lifshitz A., Mukamel Z., Schmutz S., Novault S., Steinmetz P. R. H., Spitz F., Tanay A. & Marlow H. (2018), Cell. 173, 6, p. 1520-+
  • Epigenetic Control of Expression Homeostasis during Replication Is Stabilized by the Replication Checkpoint

    Authors: Voichek Y., Mittelman K., Gordon Y., Bar-Ziv R., Smit D. L., Shenhav R. & Barkai N. (2018), Molecular Cell. 70, 6, p. 1121-+
  • Dissection of Influenza Infection In Vivo by Single-Cell RNA Sequencing

    Authors: Steuerman Y., Cohen M., Peshes-Yaloz N., Valadarsky L., Cohn O., David E., Frishberg A., Mayo L., Bacharach E., Amit I. & Gat-Viks I. (2018), Cell Systems. 6, 6, p. 679-+
  • Probiotics administration following sleeve gastrectomy surgery: a randomized double-blind trial

    Authors: Sherf-Dagan S., Zelber-Sagi S., Zilberman-Schapira G., Webb M., Buch A., Keidar A., Raziel A., Sakran N., Goitein D., Goldenberg N., Mahdi J. A., Pevsner-Fischer M., Zmora N., Dori-Bachash M., Segal E., Elinav E. & Shibolet O. (2018), International Journal of Obesity. 42, 2, p. 147-155
  • Extensive reshaping of bacterial operons by programmed mRNA decay

    Authors: Dar D. & Sorek R. (2018), PLoS Genetics. 14, 4, e1007354
  • Prediction of acute myeloid leukaemia risk in healthy individuals

    Authors: Abelson S., Collord G., Ng S. W. K., Weissbrod O., Mendelson Cohen N., Niemeyer E., Barda N., Zuzarte P. C., Heisler L., Sundaravadanam Y., Luben R., Hayat S., Wang T. T., Zhao Z., Cirlan I., Pugh T. J., Soave D., Ng K., Latimer C., Hardy C., Raine K., Jones D., Hoult D., Britten A., McPherson J. D., Johansson M., Mbabaali F., Eagles J., Miller J. K., Pasternack D., Timms L., Krzyzanowski P., Awadalla P., Costa R., Segal E., Bratman S. V., Beer P., Behjati S., Martincorena I., Wang J. C. Y., Bowles K. M., Quirós J. R., Karakatsani A., La Vecchia C., Trichopoulou A., Salamanca-Fernández E., Huerta J. M., Barricarte A., Travis R. C., Tumino R., Masala G., Boeing H., Panico S., Kaaks R., Krämer A., Sieri S., Riboli E., Vineis P., Foll M., McKay J., Polidoro S., Sala N., Khaw K., Vermeulen R., Campbell P. J., Papaemmanuil E., Minden M. D., Tanay A., Balicer R. D., Wareham N. J., Gerstung M., Dick J. E., Brennan P., Vassiliou G. S. & Shlush L. I. (2018), Nature. 559, 7714, p. 400-404
  • The opportunity cost of animal based diets exceeds all food losses

  • Interactions between short and long noncoding RNAs

    Authors: Ulitsky I. (2018), FEBS Letters. 592, 17, p. 2874-2883
  • RNA editing in bacteria: occurrence, regulation and significance

    Authors: Bar-Yaacov D., Pilpel Y. & Dahan O. (2018), RNA Biology. 15, 7, p. 863-867
  • Repertoires of tRNAs: The Couplers of Genomics and Proteomics

    Authors: Rak R., Dahan O. & Pilpel Y. (2018), Annual Review of Cell and Developmental Biology. 34, 1, p. 239-264
  • Defining the Transcriptional Landscape during Cytomegalovirus Latency with Single-Cell RNA Sequencing

    Authors: Shnayder M., Nachshon A., Krishn B., Poole E., Boshkov A., Binyamin A., Maza I., Sinclair J., Schwartz M. & Stern-Ginossar N. (2018), mBio. 9, 2, ARTN e0001
  • Human brain organoids on a chip reveal the physics of folding

    Authors: Karzbrun E., Kshirsagar A., Cohen S. R., Hanna J. H. & Reiner O. (2018), Nature Physics. 14, 5, p. 515-522
  • Paired-cell sequencing enables spatial gene expression mapping of liver endothelial cells

    Authors: Halpern K. B., Shenhav R., Massalha H., Toth B., Egozi A., Massasa E. E., Medgalia C., David E., Giladi A., Moor A. E., Porat Z., Amit I. & Itzkovitz S. (2018), Nature Biotechnology. 36, 10, p. 962-+
  • Microbiome Influences Prenatal and Adult Microglia in a Sex-Specific Manner

    Authors: Thion M. S., Low D., Silvin A., Chen J., Grisel P., Schulte-Schrepping J., Blecher R., Ulas T., Squarzoni P., Hoeffel G., Coulpier F., Siopi E., David F. S., Scholz C., Shihui F., Lum J., Amoyo A. A., Larbi A., Poidinger M., Buttgereit A., Lledo P., Greter M., Chan J. K. Y., Amit I., Beyer M., Schultze J. L., Schlitzer A., Pettersson S., Ginhoux F. & Garel S. (2018), Cell. 172, 3, p. 500-516.e16
  • Urea Cycle Dysregulation Generates Clinically Relevant Genomic and Biochemical Signatures

    Authors: Lee J. S., Adler L., Karathia H., Carmel N., Rabinovich S., Auslander N., Keshet R., Stettner N., Silberman A., Agemy L., Helbling D., Eilam R., Sun Q., Brandis A., Malitsky S., Itkin M., Weiss H., Pinto S., Kalaora S., Levy R., Barnea E., Admon A., Dimmock D., Stern-Ginossar N., Scherz A., Nagamani S. C. S., Unda M., Wilson D. M., Elhasid R., Carracedo A., Samuels Y., Hannenhalli S., Ruppin E. & Erez A. (2018), Cell. 174, 6, p. 1559-1570
  • Towards utilization of the human genome and microbiome for personalized nutrition

    Authors: Bashiardes S., Godneva A., Elinav E. & Segal E. (2018), Current Opinion in Biotechnology. 51, p. 57-63
  • Hyperglycemia drives intestinal barrier dysfunction and risk for enteric infection

    Authors: Thaiss C. A., Levy M., Grosheva I., Zheng D., Soffer E., Blacher E., Braverman S., Tengeler A. C., Barak O., Elazar M., Ben-Zeev R., Lehavi-Regev D., Katz M. N., Pevsner-Fischer M., Gertler A., Halpern Z., Harmelin A., Aamar S., Serradas P., Grosfeld A., Shapiro H., Geiger B. & Elinav E. (2018), Science. 359, 6382, p. 1376-1383
  • Global Cryptodemocracy Is Possible and Desirable

  • Identification of a unique Staphylococcus aureus ribosomal signature in severe atopic dermatitis

    Authors: Brandwein M., Fuks G., Israel A., Nejman D., Straussman R., Hodak E., Harari M., Steinberg D., Bentwich Z., Shental N. & Meshner S. (2018),
  • Disease-Associated Microglia: A Universal Immune Sensor of Neurodegeneration

    Authors: Deczkowska A., Keren-Shaul H., Weiner A., Colonna M., Schwartz M. & Amit I. (2018), Cell. 173, 5, p. 1073-1081
  • Quantitative species-level ecology of reef fish larvae via metabarcoding

    Authors: Kimmerling N., Zuqert O., Amitai G., Gurevich T., Armoza-Zvuloni R., Kolesnikov I., Berenshtein I., Melamed S., Gilad S., Benjamin S., Rivlin A., Ohavia M., Paris C. B., Holzman R., Kiflawi M. & Sorek R. (2018), Nature ecology & evolution. 2, 2, p. 306-316
  • Subepithelial telocytes are an important source of Wnts that supports intestinal crypts

    Authors: Shoshkes-Carmel M., Wang Y. J., Wangensteen K. J., Toth B., Kondo A., Massassa E. E., Itzkovitz S. & Kaestner K. H. (2018), Nature. 557, 7704, p. 242-+
  • Genome-wide SWAp-Tag yeast libraries for proteome exploration

    Authors: Weill U., Yofe I., Sass E., Stynen B., Davidi D., Natarajan J., Ben-Menachem R., Avihou Z., Goldman O., Harpaz N., Chuartzman S., Kniazev K., Knoblach B., Laborenz J., Boos F., Kowarzyk J., Ben-Dor S., Zalckvar E., Herrmann J. M., Rachubinski R. A., Pines O., Rapaport D., Michnick S. W., Levy E. D. & Schuldiner M. (2018), Nature Methods. 15, 8, p. 617-622
  • The GET pathway can increase the risk of mitochondrial outer membrane proteins to be mistargeted to the ER

    Authors: Vitali D. G., Sinzel M., Bulthuis E. P., Kolb A., Zabel S., Mehlhorn D. G., Costa B. F., Farkas A., Clancy A., Schuldiner M., Grefen C., Schwappach B., Borgese N. & Rapaport D. (2018), Journal of Cell Science. 131, 10, jcs211110
  • A Systematic p53 Mutation Library Links Differential Functional Impact to Cancer Mutation Pattern and Evolutionary Conservation

    Authors: Kotler E., Shani O., Goldfeld G., Lotan-Pompan M., Tarcic O., Gershoni A., Hopf T. A., Marks D. S., Oren M. & Segal E. (2018), Molecular Cell. 71, 1, p. 178-190.e8
  • Differences in Cell Cycle Status Underlie Transcriptional Heterogeneity in the HSC Compartment

    Authors: Lauridsen F. K. B., Jensen T. L., Rapin N., Aslan D., Wilhelmson A. S., Pundhir S., Rehn M., Paul F., Giladi A., Hasemann M. S., Serup P., Amit I. & Porse B. T. (2018), Cell Reports. 24, 3, p. 766-780
  • Single-cell mapping of the thymic stroma identifies IL-25-producing tuft epithelial cells

    Authors: Bornstein C., Nevo S., Giladi A., Kadouri N., Pouzolles M., Gerbe F., David E., Machado A., Chuprin A., Toth B., Goldberg O., Itzkovitz S., Taylor N., Jay P., Zimmermann V. S., Abramson J. & Amit I. (2018),
  • m(1)A within cytoplasmic mRNAs at single nucleotide resolution: a reconciled transcriptome-wide map

  • A biological-computational human cell lineage discovery platform based on duplex molecular inversion probes

    Authors: Tao L., Raz O., Marx Z., Biezuner T., Amir S., Milo L., Adar R., Onn A., Chapal-Ilani N., Berman V., Levy R., Oron B., Halaban R. & Shapiro E. (2018), BioRxiv.
  • Fold-change Response of Photosynthesis to Step Increases of Light Level

    Authors: Tendler A., Wolf B. C., Tiwari V., Alon U. & Danon A. (2018), iScience. 8, p. 126-137
  • Sequences enriched in Alu repeats drive nuclear localization of long RNAs in human cells

    Authors: Lubelsky Y. & Ulitsky I. (2018), Nature. 555, 7694, p. 107-111
  • Spatial Reconstruction of Single Enterocytes Uncovers Broad Zonation along the Intestinal Villus Axis

    Authors: Moor A. E., Harnik Y., Ben-Moshe S., Massasa E. E., Rozenberg M., Eilam R., Halpern K. B. & Itzkovitz S. (2018), Cell. 175, 4, p. 1156-1167
  • Viral Short ORFs and Their Possible Functions

    Authors: Finkel Y., Stern-Ginossar N. & Schwartz M. (2018), Proteomics. 18, 10, 1700255
  • Decay of the Stress-Induced Ligand MICA Is Controlled by the Expression of an Alternative 3 ' Untranslated Region

    Authors: Toledano T., Vitenshtein A., Stern-Ginossar N., Seidel E. & Mandelboim O. (2018), Journal of Immunology. 200, 8, p. 2819-2825
  • From the Human Cell Atlas to dynamic immune maps in human disease

    Authors: Adlung L. & Amit I. (2018), Nature Reviews Immunology. 18, 10, p. 597-598
  • The bone marrow is patrolled by NK cells that are primed and expand in response to systemic viral activation

    Authors: Milo I., Blecher-Gonen R., Barnett-Itzhaki Z., Bar-Ziv R., Tal O., Gurevich I., Feferman T., Drexler I., Amit I., Bousso P. & Shakhar G. (2018), European Journal of Immunology. 48, 7, p. 1137-1152
  • Functional characterization of the p53 "mutome"

    Authors: Kotler E., Segal E. & Oren M. (2018), Molecular & cellular oncology. 5, 6, 1511207
  • SAM68 is required for regulation of pumilio by the NORAD long noncoding RNA

    Authors: Tichon A., Perry R. B. T., Stojic L. & Ulitsky I. (2018), Genes and Development. 32, p. 70-78
  • Application of Algebraic Topology to homologous recombination of DNA

    Authors: Braslavsky I. & Stavans J. (2018), iScience. 4, p. 64-67
  • The Citrobacter rodentium type III secretion system effector EspO affects mucosal damage repair and antimicrobial responses

    Authors: Berger C. N., Crepin V. F., Roumeliotis T. I., Wright J. C., Serafini N., Pevsner-Fischer M., Yu L., Elinav E., Di Santo J. P., Choudhary J. S. & Frankel G. (2018), PLoS Pathogens. 14, 10, 1007406
  • High-resolution RNA 3'-ends mapping of bacterial Rho-dependent transcripts

    Authors: Dar D. & Sorek R. (2018), Nucleic Acids Research. 46, 13, p. 6797-6805
  • Host genetics and microbiome associations through the lens of genome wide association studies

    Authors: Weissbrod O., Rothschild D., Barkan E. & Segal E. (2018), Current Opinion in Microbiology. 44, p. 9-19
  • A Bird's-Eye View of Enzyme Evolution: Chemical, Physicochemical, and Physiological Considerations

    Authors: Davidi D., Longo L. M., Jablonska J., Milo R. & Tawfik D. S. (2018), Chemical Reviews. 118, 18, p. 8786-8797
  • Positioning Europe for the EPITRANSCRIPTOMICS challenge

    Authors: Jantsch M., Quattrone A., O'Connell M., Helm M., Frye M., Macias-Gonzales M., Ohman M., Ameres S., Willems L., Fuks F., Oulas A., Vanacova S., Nielsen H., Bousquet-Antonelli C., Motorin Y., Roignant J., Balatsos N., Dinnyes A., Baranov P., Kelly V., Lamm A., Rechavi G., Pelizzola M., Liepins J., Holodnuka Kholodnyuk I., Zammit V., Ayers D., Drablos F., Dahl J. A., Bujnicki J., Jeronimo C., Almeida R., Neagu M., Costache M., Bankovic J., Banovic B., Kyselovic J., Valor L. M., Selbert S., Pir P., Demircan T., Cowling V., Schäfer M., Rossmanith W., Lafontaine D., David A., Carre C., Lyko F., Schaffrath R. & Schwartz S. (2018),
  • Trained Memory of Human Uterine NK Cells Enhances Their Function in Subsequent Pregnancies

    Authors: Gamliel M., Goldman-Wohl D., Isaacson B., Gur C., Stein N., Yamin R., Berger M., Grunewald M., Keshet E., Rais Y., Bornstein C., David E., Jelinski A., Eisenberg I., Greenfield C., Ben-David A., Imbar T., Gilad R., Haimov-Kochman R., Mankuta D., Elami-Suzin M., Amit I., Hanna J. H., Yagel S. & Mandelboim O. (2018), Immunity. 48, 5, p. 951-+
  • NLRP6 and Dysbiosis: Avoiding the Luring Attraction of Over-Simplification

    Authors: Elinav E., Henao-Mejia J., Strowig T. & Flavell R. (2018),
  • A General Path-Based Representation for Predicting Program Properties

  • Single molecule approaches for studying gene regulation in metabolic tissues

    Authors: Farack L., Egozi A. & Itzkovitz S. (2018), Diabetes Obesity & Metabolism. 20, p. 145-156
  • Translating microbiome futures

    Authors: Taroncher-Oldenburg G., Jones S., Blaser M., Bonneau R., Christey P., Clemente J. C., Elinav E., Ghedin E., Huttenhower C., Kelly D., Kyle D., Littman D., Maiti A., Maue A., Olle B., Segal L., Vlieg J. E. T. v. H. & Wang J. (2018), Nature Biotechnology. 36, 11, p. 1037-1042
  • Early metazoan cell type diversity and the evolution of multicellular gene regulation

    Authors: Sebe-Pedros A., Chomsky E., Pang K., Lara-Astiaso D., Gaiti F., Mukamel Z., Amit I., Hejnol A., Degnan B. M. & Tanay A. (2018), Nature ecology & evolution. 2, 7, p. 1176-+
  • Stepping outside the comfort zone of membrane contact site research

    Authors: Bohnert M. & Schuldiner M. (2018), Nature Reviews Molecular Cell Biology. 19, 8, p. 483-484
  • Mind the Organelle Gap - Peroxisome Contact Sites in Disease

    Authors: Castro I. G., Schuldiner M. & Zalckvar E. (2018), Trends in Biochemical Sciences. 43, 3, p. 199-210
  • Genome-wide C-SWAT library for high-throughput yeast genome tagging

    Authors: Meurer M., Duan Y., Sass E., Kats I., Herbst K., Buchmuller B. C., Dederer V., Huber F., Kirrmaier D., Stefl M., Van Laer K., Dick T. P., Lemberg M. K., Khmelinskii A., Levy E. D. & Knop M. (2018), Nature Methods. 15, 8, p. 598-600
  • The anti-inflammatory IFITM genes ameliorate colitis and partially protect from tumorigenesis by changing immunity and microbiota

    Authors: Alteber Z., Sharbi-Yunger A., Pevsner-Fischer M., Blat D., Roitman L., Tzehoval E., Elinav E. & Eisenbach L. (2018), Immunology and Cell Biology. 96, 3, p. 284-297
  • Creative exploration as a scale-invariant search on a meaning landscape

    Authors: Hart Y., Goldberg H., Striem-Amit E., Mayo A. E., Noy L. & Alon U. (2018), Nature Communications. 9, 5411
  • A Visual Framework for Classifying Determinants of Cell Size

    Authors: Jonas F., Soifer I. & Barkai N. (2018), Cell Reports. 25, 12, p. 3519-3529.e2
  • Circuit Design Features of a Stable Two-Cell System

    Authors: Zhou X., Franklin R. A., Adler M., Jacox J. B., Bailis W., Shyer J. A., Flavell R. A., Mayo A., Alon U. & Medzhitov R. (2018), Cell. 172, 4, p. 744-757.e17
  • Database for High Throughput Screening Hits (dHITS): a simple tool to retrieve gene specific phenotypes from systematic screens done in yeast

    Authors: Chuartzman S. G. & Schuldiner M. (2018), Yeast. 35, 7, p. 477-483
  • Identification of seipin-linked factors that act as determinants of a lipid droplet subpopulation

    Authors: Eisenberg-Bord M., Mari M., Weill U., Rosenfeld-Gur E., Moldavski O., Castro I. G., Soni K. G., Harpaz N., Levine T. P., Futerman A. H., Reggiori F., Bankaitis V. A., Schuldiner M. & Bohnert M. (2018), Journal of Cell Biology. 217, 1, p. 269-282
  • A Myc enhancer cluster regulates normal and leukaemic haematopoietic stem cell hierarchies

    Authors: Bahr C., von Paleske L., Slu V. V. U., Emeseiro S. R., Takayama N., Ng S. W., Murison A., Langenfeld K., Petretich M., Scognamiglio R., Zeisberger P., Benk A. S., Amit I., Zandstra P. W., Lupien M., Dick J. E., Trumpp A. & Spitz F. (2018), Nature. 553, 7689, p. 515-+
  • Single-cell characterization of haematopoietic progenitors and their trajectories in homeostasis and perturbed haematopoiesis

    Authors: Giladi A., Paul F., Herzog Y., Lubling Y., Weiner A., Yofe I., Jaitin D., Cabezas-Wallscheid N., Dress R., Ginhoux F., Trumpp A., Tanay A. & Amit I. (2018), Nature Cell Biology. 20, 7, p. 836-+
  • The Role of m(6)A/m-RNA Methylation in Stress Response Regulation

    Authors: Engel M., Eggert C., Kaplick P. M., Eder M., Roeh S., Tietze L., Namendorf C., Arloth J., Weber P., Rex-Haffner M., Geula S., Jakovcevski M., Hanna J. H., Leshkowitz D., Uhr M., Wotjak C. T., Schmidt M. V., Deussing J. M., Binder E. B. & Chen A. (2018), Neuron. 99, 2, p. 389-403.e9
  • Personalized Gut Mucosal Colonization Resistance to Empiric Probiotics Is Associated with Unique Host and Microbiome Features

    Authors: Zmora N., Zilberman-Schapira G., Suez J., Mor U., Dori-Bachash M., Bashiardes S., Kotler E., Zur M., Regev-Lehavi D., Brik R. B., Federici S., Cohen Y., Linevsky R., Rothschild D., Moor A. E., Ben-Moshe S., Harmelin A., Itzkovitz S., Maharshak N., Shibolet O., Shapiro H., Pevsner-Fischer M., Sharon I., Halpern Z., Segal E. & Elinav E. (2018), Cell. 174, 6, p. 1388-1405.e21
  • On the journey from nematode to human, scientists dive by the zebrafish cell lineage tree

    Authors: Shapiro E. (2018), Genome Biology. 19, 1, 63
  • Combining Developmental and Perturbation-Seq Uncovers Transcriptional Modules Orchestrating Neuronal Remodeling

    Authors: Alyagor I., Berkun V., Keren-Shaul H., Marmor-Kollet N., David E., Mayseless O., Issman-Zecharya N., Amit I. & Schuldiner O. (2018), Developmental Cell. 47, 1, p. 38-52
  • A Bacterial Growth Law out of Steady State

    Authors: Korem Kohanim Y., Levi D., Jona G., Towbin B. D., Bren A. & Alon U. (2018), Cell Reports. 23, 10, p. 2891-2900
  • Modulating cell state to enhance suspension expansion of human pluripotent stem cells

    Authors: Lipsitz Y. Y., Woodford C., Yin T., Hanna J. H. & Zandstra P. W. (2018), Proceedings Of The National Academy Of Sciences Of The United States Of America-Biological Sciences. 115, 25, p. 6369-6374
  • Codon usage of highly expressed genes affects proteome-wide translation efficiency

    Authors: Frumkin I., Lajoie M. J., Gregg C. J., Hornung G., Church G. M. & Pilpel Y. (2018), Proceedings Of The National Academy Of Sciences Of The United States Of America-Biological Sciences. 115, 21, p. E4940-E4949
  • Unraveling the determinants of microRNA mediated regulation using a massively parallel reporter assay

    Authors: Slutskin I. V., Weingarten-Gabbay S., Nir R., Weinberger A. & Segal E. (2018), Nature Communications. 9, 529
  • Sieving through gut models of colonization resistance

    Authors: Mullineaux-Sanders C., Suez J., Elinav E. & Frankel G. (2018), Nature Microbiology. 3, 2, p. 132-140
  • Systematic discovery of antiphage defense systems in the microbial pangenome

    Authors: Doron S., Melamed S., Ofir G., Leavitt A., Lopatina A., Keren M., Amitai G. & Sorek R. (2018), Science (American Association for the Advancement of Science). 359, 6379, eaar4120
  • Temporal profiling of redox-dependent heterogeneity in single cells

    Authors: Radzinski M., Fassler R., Yogev O., Breuer W., Shai N., Gutin J., Ilyas S., Geffen Y., Tsytkin-Kirschenzweig S., Nahmias Y., Ravid T., Friedman N., Shuldiner M. & Reichmann D. (2018), eLife. 7, 37623
  • Toolbox: Creating a systematic database of secretory pathway proteins uncovers new cargo for COPI

    Authors: Weill U., Arakel E. C., Goldmann O., Golan M., Chuartzman S., Munro S., Schwappach B. & Schuldiner M. (2018), Traffic. 19, 5, p. 370-379
  • Altered p53 functionality in cancer-associated fibroblasts contributes to their cancer-supporting features

    Authors: Arandkar S., Furth N., Elisha Y., Belugali Nataraj N., van der Kuip H., Yarden Y., Aulitzky W., Ulitsky I., Geiger B. & Oren M. (2018), Proceedings Of The National Academy Of Sciences Of The United States Of America-Biological Sciences. 115, 25, p. 6410-6415
  • Impaired immune surveillance accelerates accumulation of senescent cells and aging

    Authors: Ovadya Y., Landsberger T., Leins H., Vadai E., Gal H., Biran A., Yosef R., Sagiv A., Agrawal A., Shapira A., Windheim J., Tsoory M., Schirmbeck R., Amit I., Geiger H. & Krizhanovsky V. (2018), Nature Communications. 9, 5435
  • Dynamic proteomics reveals bimodal protein dynamics of cancer cells in response to HSP90 inhibitor

    Authors: Zimmer A., Amar Farkash F. S., Danon T. & Alon U. (2017), BMC Systems Biology. 11, 1, 33
  • Potential role of intratumor bacteria in mediating tumor resistance to the chemotherapeutic drug gemcitabine

    Authors: Geller L. T., Barzily-Rokni M., Danino T., Jonas O. H., Shental N., Nejman D., Gavert N., Zwang Y., Cooper Z. A., Shee K., Thaiss C. A., Reuben A., Livny J., Avraham R., Frederick D. T., Ligorio M., Chatman K., Johnston S. E., Mosher C. M., Brandis A., Fuks G., Gurbatri C., Gopalakrishnan V., Kim M., Hurd M. W., Katz M., Fleming J., Maitra A., Smith D. A., Skalak M., Bu J., Michaud M., Trauger S. A., Barshack I., Golan T., Sandbank J., Flaherty K. T., Mandinova A., Garrett W. S., Thayer S. P., Ferrone C. R., Huttenhower C., Bhatia S. N., Gevers D., Wargo J. A., Golub T. R. & Straussman R. (2017), Science. 357, 6356, p. 1156-1160
  • Post-translational modification profiling-functional proteomics for the analysis of immune regulation

  • Immunology, one cell at a time

    Authors: Giladi A. & Amit I. (2017),
  • A multiplexed screening method for pluripotency

    Authors: Plotnikov A., Kozer N., Krupalnik V., Peles S., Mor N., Rais Y., Hanna J. H. & Barr H. M. (2017), Stem Cell Research. 23, p. 158-162
  • Early commitment and robust differentiation in colonic crypts

    Authors: Toth B., Ben-Moshe S., Gavish A., Barkai N. & Itzkovitz S. (2017), Molecular Systems Biology. 13, 1, 902
  • Prediction of drug cocktail effects when the number of measurements is limited

    Authors: Zimmer A., Tendler A., Katzir I., Mayo A. & Alon U. (2017), PLoS Biology. 15, 10, e2002518
  • RNA editing in bacteria recodes multiple proteins and regulates an evolutionarily conserved toxin-antitoxin system

    Authors: Bar-Yaacov D., Mordret E., Towers R., Biniashvili T., Soyris C., Schwartz S., Dahan O. & Pilpel Y. (2017), Genome Research. 27, 10, p. 1696-1703
  • The path towards microbiome-based metabolite treatment

    Authors: Suez J. & Elinav E. (2017), Nature Microbiology. 2, 6, 17075
  • Coupling phenotypic persistence to DNA damage increases genetic diversity in severe stress

    Authors: Yaakov G., Lerner D., Bentele K., Steinberger J. & Barkai N. (2017), Nature Ecology and Evolution. 1, 1, 0016
  • Systematic, multiparametric analysis of Mycobacterium tuberculosis intracellular infection offers insight into coordinated virulence

    Authors: Barczak A., Avraham R., Luo S., Zhang W., Bray M., Hinman A., Thompson M., Nietupski R., Golas A., Montgomery P., Fitzgerald M., Smith R., White D., Tischler A., Carpenter A., Hung D. & Singh S. (2017), PLoS Pathog. 13, 5, e1006363
  • Ectopic colonization of oral bacteria in the intestine drives TH1 cell induction and inflammation

    Authors: Atarashi K., Suda W., Luo C., Kawaguchi T., Motoo I., Narushima S., Kiguchi Y., Yasuma K., Watanabe E., Tanoue T., Thaiss C. A., Sato M., Toyooka K., Said H. S., Yamagami H., Rice S. A., Gevers D., Johnson R. C., Segre J. A., Chen K., Kolls J. K., Elinav E., Morita H., Xavier R. J., Hattori M. & Honda K. (2017), Science. 358, 6361, p. 359-365
  • Saccharomyces cerevisiae cells lacking Pex3 contain membrane vesicles that harbor a subset of peroxisomal membrane proteins

    Authors: Wroblewska J. P., Cruz-Zaragoza L. D., Yuan W., Schummer A., Chuartzman S. G., de Boer B. R., Oeljeklaus S., Schuldiner M., Zalckvar E., Warscheid B., Erdmann R. & van der Klei d. K. I. J. (2017), Biochimica et Biophysica Acta - Molecular Cell Research. 1864, 10, p. 1656-1667
  • Communication between viruses guides lysis-lysogeny decisions

    Authors: Erez Z., Steinberger-Levy I., Shamir M., Doron S., Stokar Avihail A. A., Peleg Y., Melamed S., Leavitt A., Savidor A., Albeck S., Amitai G. & Sorek R. (2017), Nature. 541, 7638, p. 488-493
  • Autonomous TNF is critical for in vivo monocyte survival in steady state and inflammation

    Authors: Wolf Y., Shemer A., Polonsky M., Gross-Vered M., Mildner A., Yona S., David E., Kim K., Goldmann T., Amit I., Heikenwalder M., Nedospasov S., Prinz M., Friedman N. & Jung S. (2017), Journal of Experimental Medicine. 214, 4, p. 905-917
  • Dynamic zonation of liver polyploidy

    Authors: Tanami S., Ben Moshe M. S., Elkayam A., Mayo A., Halpern K. B. & Itzkovitz S. (2017), Cell and Tissue Research. 368, 2, p. 405-410
  • Inflammasomes and intestinal inflammation

    Authors: Zmora N., Levy M., Pevsner-Fischer M. & Elinav E. (2017), Mucosal Immunology. 10, 4, p. 865-883
  • Placebo can enhance creativity

    Authors: Rozenkrantz L., Mayo A. E., Ilan T., Hart Y., Noy L. & Alon U. (2017), PLoS ONE. 12, 9, e0182466
  • Increased NK cell immunity in a transgenic mouse model of NKp46 overexpression

    Authors: Glasner A., Isaacson B., Viukov S., Neuman T., Friedman N., Mandelboim M., Sexl V., Hanna J. H. & Mandelboim O. (2017), Scientific Reports. 7, 13090
  • Genomic Characterization of Murine Monocytes Reveals C/EBP beta Transcription Factor Dependence of Ly6C(-) Cells

    Authors: Mildner A., Schoenheit J., Giladi A., David E., Lara Astiaso A. D., Lorenzo Vivas V. E., Paul F., Chappell-Maor L., Priller J., Leutz A., Amit I. & Jung S. (2017), Immunity. 46, 5, p. 849-862
  • A Participatory Democratic Budgeting Algorithm

    Authors: Shapiro E. & Talmon N. (2017), arXiv.
  • Multiscale 3D Genome Rewiring during Mouse Neural Development

    Authors: Bonev B., Mendelson Cohen N., Szabo Q., Fritsch L., Papadopoulos G. L., Lubling Y., Xu X., Lv X., Hugnot J. P., Tanay A. & Cavalli G. (2017), Cell. 171, 3, p. 557-572.e24
  • p53 is essential for DNA methylation homeostasis in naive embryonic stem cells, and its loss promotes clonal heterogeneity

    Authors: Tovy A., Spiro A., McCarthy R., Shipony Z., Aylon Y., Allton K., Ainbinder E., Furth N., Tanay A., Barton M. & Oren M. (2017), GENES & DEVELOPMENT. 31, 10, p. 959-972
  • Combining Deep Sequencing, Proteomics, Phosphoproteomics, and Functional Screens to Discover Novel Regulators of Sphingolipid Homeostasis

    Authors: Lebesgue N., Megyeri M., Cristobal A., Scholten A., Chuartzman S. G., Voichek Y., Scheltema R. A., Mohammed S., Futerman A. H., Schuldiner M., Heck A. J. R. & Lemeer S. (2017), Journal of Proteome Research. 16, 2, p. 571-582
  • Cellular consequences of diminished protein O-mannosyltransferase activity in baker’s yeast

    Authors: Zatorska E., Gal L., Schmitt J., Bausewein D., Schuldiner M. & Strahl S. (2017), International Journal of Molecular Sciences. 18, 6, 1226
  • Optimal Regulatory Circuit Topologies for Fold-Change Detection

    Authors: Adler M., Szekely P., Mayo A. & Alon U. (2017), Cell Systems. 4, 2, p. 171-+
  • Chromatin dynamics During DNA replication

    Authors: Barkai N. (2017),
  • Buffering Global Variability of Morphogen Gradients

    Authors: Shilo B. & Barkai N. (2017), Developmental Cell. 40, 5, p. 429-438
  • CD74 is a novel transcription regulator

    Authors: Gil-Yarom N., Radomir L., Sever L., Kramer M. P., Lewinsky H., Bornstein C., Blecher-Gonen R., Barnett Itzhaki Z., Mirkin V., Friedlander G., Shvidel L., Herishanu Y., Lolis E. J., Becker Herman S., Amit I. & Shachar I. (2017), Proceedings of the National Academy of Sciences of the United States of America. 114, 3, p. 562-567
  • m6A mRNA modifications are deposited in nascent pre-mRNA and are not required for splicing but do specify cytoplasmic turnover

    Authors: Ke S., Pandya-Jones A., Saito Y., Fak J. J., Vagbo C. B., Geula S., Hanna J. H., Black D. L., Darnell J. E. & Darnell R. B. (2017), GENES & DEVELOPMENT. 31, 10, p. 990-1006
  • Citrobacter rodentium Subverts ATP Flux and Cholesterol Homeostasis in Intestinal Epithelial Cells In Vivo

    Authors: Berger C. N., Crepin V. F., Roumeliotis T. I., Wright J. C., Carson D., Pevsner-Fischer M., Furniss R. C. D., Dougan G., Dori-Bachash M., Yu L., Clements A., Collins J. W., Elinav E., Larrouy-Maumus G. J., Choudhary J. S. & Frankel G. (2017), Cell Metabolism. 26, 5, p. 738-752.e6
  • Microbiome, metabolites and host immunity

    Authors: Levy M., Blacher E. & Elinav E. (2017), Current Opinion in Microbiology. 35, p. 8-15
  • Large-scale mapping of gene regulatory logic reveals context-dependent repression by transcriptional activators

    Authors: Van Dijk D. D., Sharon E., Lotan-Pompan M., Weinberger A., Segal E. & Carey L. (2017), Genome Research. 27, 1, p. 87-94
  • Cell-cycle dynamics of chromosomal organization at single-cell resolution

    Authors: Nagano T., Lubling Y., Várnai C., Dudley C., Leung W., Baran Y., Mendelson Cohen N., Wingett S., Fraser P. & Tanay A. (2017), Nature. 547, 7661, p. 61-67
  • The genetic requirements for pentose fermentation in budding yeast

    Authors: Mittelman K. & Barkai N. (2017), G3-GENES GENOMES GENETICS. 7, 6, p. 1743-1752
  • Intracellular signaling in CRISPR-Cas defense

    Authors: Amitai G. & Sorek R. (2017),
  • The m(1)A landscape on cytosolic and mitochondrial mRNA at single-base resolution

    Authors: Safra M., Sas-Chen A., Nir R., Winkler R., Nachshon A., Bar-Yaacov D., Erlacher M., Rossmanith W., Stern-Ginossar N. & Schwartz S. (2017), Nature. 551, 7679, p. 251-255
  • The human lncRNA LINC-PINT inhibits tumor cell invasion through a highly conserved sequence element

    Authors: Marin-Bejar O., Mas A. M., Gonzalez J., Martinez D., Athie A., Morales X., Galduroz M., Raimondi I., Grossi E., Guo S., Rouzaut A., Ulitsky I. & Huarte M. (2017), GENOME BIOLOGY. 18, 202
  • Syp1 regulates the clathrin-mediated and clathrin-independent endocytosis of multiple cargo proteins through a novel sorting motif

    Authors: Apel A. R., Hoban K., Chuartzman S., Tonikian R., Sidhu S., Schuldiner M., Wendland B. & Prosser D. (2017), Molecular Biology of the Cell. 28, 18, p. 2434-2448
  • Editorial overview: Systems biology for biotechnology

    Authors: Heinemann M. & Pilpel Y. (2017), Current Opinion in Biotechnology. 46, p. IV-V
  • The microbiome in anti-cancer therapy

    Authors: Bashiardes S., Tuganbaev T., Federici S. & Elinav E. (2017), Seminars in Immunology. 32, p. 74-81
  • NFIL-trating the Host Circadian Rhythm-Microbes Fine-Tune the Epithelial Clock

    Authors: Thaiss C. A., Nobs S. P. & Elinav E. (2017), Cell Metabolism. 26, 5, p. 699-700
  • OCT4 impedes cell fate redirection by the melanocyte lineage master regulator MITF in mouse ESCs

    Authors: Sheinboim D., Maza I., Dror I., Parikh S., Krupalnik V., Bell R. E., Zviran A., Suita Y., Hakim O., Mandel-Gutfreund Y., Khaled M., Hanna J. H. & Levy C. (2017), Nature Communications. 8, 1022
  • A different kind of love - lipid droplet contact sites

  • Principles of cellular resource allocation revealed by condition-dependent proteome profiling

    Authors: Metzl-Raz E., Kafri M., Yaakov G., Soifer I., Gurvich Y. & Barkai N. (2017), eLife. 6, e28034
  • Principles of Systems Biology, No. 21

    Authors: Cao J., Packer J., Waterston R., Trapnell C., Shendure J., Rajaram S., Wu L. F., Altschuler S. J., Liang J., O'Brien L. E., Eizenberg-Magar I., Rimer J., Friedman N., Metzl-Raz E., Kafri M., Yaakov G., Soifer I., Gurvich Y., Barkai N., Mardinoglu A., Ponten F., Uhlen M., Rahi S. J., Cross F. R., Baumgart M. & Noack S. (2017), Cell Systems. 5, 3, p. 158-160
  • An Endogenously Tagged Fluorescent Fusion Protein Library in Mouse Embryonic Stem Cells

    Authors: Harikumar A., Edupuganti R. R., Sorek M., Azad G. K., Markoulaki S., Sehnalova P., Legartova S., Bartova E., Farkash-Amar S., Jaenisch R., Alon U. & Meshorer E. (2017), Stem Cell Reports. 9, 4, p. 1304-1314
  • Targeting and translocation of proteins to the endoplasmic reticulum at a glance

    Authors: Aviram N. & Schuldiner M. (2017), Journal of Cell Science. 130, 24, p. 4079-4085
  • Cap-proximal nucleotides via differential eIF4E binding and alternative promoter usage mediate translational response to energy stress

    Authors: Tamarkin Ben Harush B. H. A., Vasseur J., Debart F., Ulitsky I. & Dikstein R. (2017), eLife. 6, e21907
  • Lessons on enzyme kinetics from quantitative proteomics

    Authors: Davidi D. & Milo R. (2017), Current Opinion in Biotechnology. 46, p. 81-89
  • Innate Immune Landscape in Early Lung Adenocarcinoma by Paired Single-Cell Analyses

    Authors: Lavin Y., Kobayashi S., Leader A., Amir E. D., Elefant N., Bigenwald C., Remark R., Sweeney R., Becker C. D., Levine J. H., Meinhof K., Chow A., Kim-Shulze S., Wolf A., Medaglia C., Li H., Rytlewski J. A., Emerson R. O., Solovyov A., Greenbaum B. D., Sanders C., Vignali M., Beasley M. B., Flores R., Gnjatic S., Pe'er D., Rahman A., Amit I. & Merad M. (2017), Cell. 169, 4, p. 750-765.e17
  • Ground control to major TOM: mitochondria–nucleus communication

    Authors: Eisenberg-Bord M. & Schuldiner M. (2017), FEBS Journal. 284, 2, p. 196-210
  • Pex35 is a regulator of peroxisome abundance

    Authors: Yofe I., Soliman K., Chuartzman S. G., Morgan B., Weill U., Yifrach E., Dick T. P., Cooper S. J., Ejsing C. S., Schuldiner M., Zalckvar E. & Thoms S. (2017), Journal of Cell Science. 130, 4, p. 791-804
  • Single-cell transcriptome conservation in cryopreserved cells and tissues

    Authors: Guillaumet-Adkins A., Rodriguez-Esteban G., Mereu E., Mendez-Lago M., Jaitin D. A., Villanueva A., Vidal A., Martinez-Marti A., Felip E., Vivancos A., Keren-Shaul H., Heath S., Gut M., Amit I., Gut I. & Heyn H. (2017), GENOME BIOLOGY. 18, 1, 45
  • Coordinated Pulses of mRNA and of Protein Translation or Degradation Produce EGF-Induced Protein Bursts

    Authors: Golan-Lavi R., Giacomelli C., Fuks G., Zeisel A., Sonntag J., Sinha S., Kostler W., Wiemann S., Korf U., Yarden Y. & Domany E. (2017), Cell Reports. 18, 13, p. 3129-3142
  • A pathway of targeted autophagy is induced by DNA damage in budding yeast

    Authors: Eapen V. V., Waterman D. P., Bernard A., Schiffmann N., Sayas E., Kamber R., Lemos B., Memisoglu G., Ang J., Mazella A., Chuartzman S. G., Loewith R. J., Schuldiner M., Denic V., Klionsky D. J. & Haber J. E. (2017), Proceedings of the National Academy of Sciences of the United States of America. 114, 7, p. E1158-E1167
  • RNA editing by ADAR1 leads to context-dependent transcriptome-wide changes in RNA secondary structure

    Authors: Solomon O., Di Segni A., Cesarkas K., Porath H. T., Marcu-Malina V., Mizrahi O., Stern-Ginossar N., Kol N., Farage-Barhom S., Glick-Saar E., Lerenthal Y., Levanon E. Y., Amariglio N., Unger R., Goldstein I., Eyal E. & Rechavi G. (2017), Nature Communications. 8, 1440 (2017
  • GAS6 is a key homeostatic immunological regulator of host-commensal interactions in the oral mucosa

    Authors: Nassar M., Tabib Y., Capucha T., Mizraji G., Nir T., Pevsner-Fischer M., Zilberman-Schapira G., Heyman O., Nussbaum G., Bercovier H., Wilensky A., Elinav E., Burstyn-Cohen T. & Hovav A. H. (2017), Proceedings of the National Academy of Sciences of the United States of America. 114, 3, p. E337-E346
  • A Unique Microglia Type Associated with Restricting Development of Alzheimer's Disease

    Authors: Keren-Shaul H., Spinrad A., Weiner A., Matcovitch-Natan O., Dvir-Szternfeld R., Ulland T. K., David E., Baruch K., Lara-Astaiso D., Toth B., Itzkovitz S., Colonna M., Schwartz M. & Amit I. (2017), Cell. 169, 7, p. 1276-1290.e17
  • Efficient and accurate translation initiation directed by TISU involves RPS3 and RPS10e binding and differential eukaryotic initiation factor 1A regulation

    Authors: Haimov O., Sinvani H., Martin F., Ulitsky I., Emmanuel R., Tamarkin Ben Harush B. H. A., Vardy A. & Dikstein R. (2017), Molecular and Cellular Biology. 37, 15, e00150-17
  • Exhaustive search of linear information encoding protein-peptide recognition

    Authors: Kelil A., Dubreuil B., Levy E. D. & Michnick S. W. (2017), PLoS Computational Biology. 13, 4, e1005499
  • Iron affects Ire1 clustering propensity and the amplitude of endoplasmic reticulum stress signaling

    Authors: Cohen N., Breker M., Bakunts A., Pesek K., Chas A., Argemi J., Orsi A., Gal L., Chuartzman S., Wigelman Y., Jonas F., Walter P., Ernst R., Aragon T., van Anken E. & Schuldiner M. (2017), Journal of Cell Science. 130, 19, p. 3222-3233
  • Engineering carbon fixation in E. coil: from heterologous RuBisCO expression to the Calvin–Benson–Bassham cycle

    Authors: Antonovsky N., Gleizer S. & Milo R. (2017), Current Opinion in Biotechnology. 47, p. 83-91
  • Global mRNA polarization regulates translation efficiency in the intestinal epithelium

    Authors: Moor A. E., Golan M., Massasa E. E., Lemze D., Weizman T., Shenhav R., Baydatch S., Mizrahi O., Winkler R., Golani O., Stern-Ginossar N. & Itzkovitz S. (2017), Science. 357, 6357, p. 1299-1303
  • hSnd2 protein represents an alternative targeting factor to the endoplasmic reticulum in human cells

    Authors: Hassdenteufel S., Sicking M., Schorr S., Aviram N., Fecher-Trost C., Schuldiner M., Jung M., Zimmermann R. & Lang S. (2017), FEBS Letters. 591, 20, p. 3211-3224
  • Two novel effectors of trafficking and maturation of the yeast plasma membrane H+-ATPase

    Authors: Geva Y., Crissman J., Arakel E. C., Gomez-Navarro N., Chuartzman S. G., Stahmer K. R., Schwappach B., Miller E. A. & Schuldiner M. (2017), Traffic. 18, 10, p. 672-682
  • Regulation of antibiotic-resistance by non-coding RNAs in bacteria

    Authors: Dar D. & Sorek R. (2017), Current Opinion in Microbiology. 36, p. 111-117
  • Casein kinase 1-epsilon or 1-delta required for Wnt-mediated intestinal stem cell maintenance

    Authors: Morgenstern Y., Das Adhikari A. U., Ayyash M., Elyada E., Toth B., Moor A., Itzkovitz S. & Ben-Neriah Y. (2017), EMBO Journal. 36, 20, p. 3046-3061
  • Heterosis as a consequence of regulatory incompatibility

    Authors: Herbst R. H., Bar-Zvi D., Reikhav S., Soifer I., Breker M., Jona G., Shimoni E., Schuldiner M., Levy A. A. & Barkai N. (2017), BMC Biology. 15, 38
  • Sequence features of viral and human Internal Ribosome Entry Sites predictive of their activity

    Authors: Gritsenko A. A., Weingarten-Gabbay S., Elias-Kirma S., Nir R., De Ridder R. D. & Segal E. (2017), PLoS Computational Biology. 13, 9, e1005734
  • Mitochatting - If only we could be a fly on the cell wall

    Authors: Eisenberg-Bord M. & Schuldiner M. (2017), Biochimica et Biophysica Acta - Molecular Cell Research. 1864, 9, p. 1469-1480
  • Design principles of autocatalytic cycles constrain enzyme kinetics and force low substrate saturation at flux branch points

    Authors: Barenholz U., Davidi D., Reznik E., Bar-On Y., Antonovsky N., Noor E. & Milo R. (2017), eLife. 6, 20667
  • Incredibly close-A newly identified peroxisome-ER contact site in humans

    Authors: Schuldiner M. & Zalckvar E. (2017), Journal of Cell Biology. 216, 2, p. 287-289
  • Expansion-restriction of Spemann's organizer by an ADMP self-regulatory switch to scale the BMP gradient

    Authors: Fainsod A., Leibovich A., Leibovich-Kot H., Ben-Zvi D. & Barkai N. (2017),
  • Dual role of starvation signaling in promoting growth and recovery

    Authors: Gurvich Y., Leshkowitz D. & Barkai N. (2017), PLoS Biology. 15, 12, 2002039
  • Involvement of a gut-retina axis in protection against dietary glycemia-induced age-related macular degeneration

    Authors: Rowan S., Jiang S., Korem T., Szymanski J., Chang M., Szelog J., Cassalman C., Dasuri K., McGuire C., Nagai R., Du X., Brownlee M., Rabbani N., Thornalley P. J., Baleja J. D., Deik A. A., Pierce K. A., Scott J. M., Clish C. B., Smith D. E., Weinberger A., Avnit Sagi T., Lotan-Pompan M., Segal E. & Taylor A. (2017), Proceedings of the National Academy of Sciences of the United States of America. 114, 22, p. E4472-E4481
  • Cap-binding protein 4EHP effects translation silencing by microRNAs

    Authors: Chapat C., Jafarnejad S. M., Matta-Camacho E., Hesketh G. G., Gelbart I. A., Attig J., Gkogkas C. G., Alain T., Stern-Ginossar N., Fabian M. R., Gingras A., Duchaine T. F. & Sonenberg N. (2017), Proceedings of the National Academy of Sciences of the United States of America. 114, 21, p. 5425-5430
  • MicroRNA-142 controls thymocyte proliferation

    Authors: Mildner A., Chapnik E., Varol D., Aychek T., Lampl N., Rivkin N., Bringmann A., Paul F., Boura-Halfon S., Hayoun Y. S., Barnett Itzhaki I. Z., Amit I., Hornstein E. & Jung S. (2017), European Journal of Immunology. 47, 7, p. 1142-1152
  • scDual-Seq: Mapping the gene regulatory program of Salmonella infection by host and pathogen single-cell RNA-sequencing

    Authors: Avital G., Avraham R., Fan A., Hashimshony T., Hung D. T. & Yanai I. (2017), GENOME BIOLOGY. 18, 1, 200
  • Transcriptional programs that control expression of the autoimmune regulator gene Aire

    Authors: Herzig Y., Nevo S., Bornstein C., Brezis M. R., Ben-Hur S., Shkedy A., Eisenberg-Bord M., Levi B., Delacher M., Goldfarb Y., David E., Weinberger L., Viukov S., Ben-Dor S., Giraud M., Hanna J. H., Breiling A., Lyko F., Amit I., Feuerer M. & Abramson J. (2017), Nature Immunology. 18, 2, p. 161-172
  • TRUB1 is the predominant pseudouridine synthase acting on mammalian mRNA via a predictable and conserved code

    Authors: Safra M., Nir R., Farouq D., Slutzkin I. V. & Schwartz S. (2017), Genome Research. 27, 3, p. 393-406
  • Spatial reconstruction of immune niches by combining photoactivatable reporters and scRNA-seq

    Authors: Medaglia C., Giladi A., Stoler-Barak L., De Giovanni M., Salame T. M., Biram A., David E., Li H., Iannacone M., Shulman Z. & Amit I. (2017), Science. 358, 6370, p. 1622-1626
  • Analysis of blood-based gene expression in idiopathic Parkinson disease

    Authors: Shamir R., Klein C., Amar D., Vollstedt E., Bonin M., Usenovic M., Wong Y. C., Maver A., Poths S., Safer H., Corvol J., Lesage S., Lavi O., Deuschl G., Kuhlenbaeumer G., Pawlack H., Ulitsky I., Kasten M., Riess O., Brice A., Peterlin B. & Krainc D. (2017), Neurology. 89, 16, p. 1676-1683
  • Scaling single-cell genomics from phenomenology to mechanism

    Authors: Tanay A. & Regev A. (2017), Nature. 541, 7637, p. 331-338
  • Evidence for a cytoplasmic pool of ribosome-free mRNAs encoding inner membrane proteins in Escherichia coli

    Authors: Benhalevy D., Biran I., Bochkareva E. S., Sorek R. & Bibi E. (2017), PLoS ONE. 12, 8, e0183862
  • Women in Metabolism: The Next Generation

    Authors: Merbl Y. (2017),
  • Suppressors and activators of JAK-STAT signaling at diagnosis and relapse of acute lymphoblastic leukemia in Down syndrome

    Authors: Schwartzman O., Savino A. M., Gombert M., Palmi C., Cario G., Schrappe M., Eckert C., von Stackelberg A., Huang J., Hameiri-Grossman M., Avigad S., te Kronnie G., Geron I., Birger Y., Rein A., Zarfati G., Fischer U., Mukamel Z., Stanulla M., Biondi A., Cazzaniga G., Vetere A., Wagner B. K., Chen Z., Chen S., Tanay A., Borkhardt A. & Izraeli S. (2017), Proceedings Of The National Academy Of Sciences Of The United States Of America-Physical Sciences. 114, 20, p. E4030-E4039
  • Sub-cellular mRNA localization modulates the regulation of gene expression by small RNAs in bacteria

    Authors: Teimouri H., Korkmazhan E., Stavans J. & Levine E. (2017), Physical Biology. 14, 5, 056001
  • Science Forum: The Human Cell Atlas

    Authors: Regev A., Teichmann S. A., Lander E. S., Amt I., Benoist C., Birney E., Bodenmiller B., Campbell P., Carninci P., Clatworthy M., Clevers H., Deplancke B., Dunham I., Eberwine J., Elis R., Enard W., Farmer A., Fugger L., Gottgens B., Hacohen N., Haniffa M., Hemberg M., Kim S., Klenerman P., Kriegstein A., Lein E. D., Linnarsson S., Lundberg E., Lundeberg J., Majumder P., Marioni J. C., Merad M., Mhlanga M., Nawijin M., Netea M., Nolan G., Pe'er D., Phillipakis A., Ponting C. P., Quake S., Reik W., Rozenblatt-Rosen O., Sanes J., Satija R., Schumacher T. N., Shalek A., Shapiro E., Sharma P., Shin J. W., Stegle O. & (2017), eLife. 6, e27041
  • Single-cell spatial reconstruction reveals global division of labour in the mammalian liver

    Authors: Halpern K. B., Shenhav R., Matcovitch-Natan O., Toth B., Lemze D., Golan M., Massasa E. E., Baydatch S., Landen S., Moor A. E., Brandis A., Giladi A., Stokar-Avihail A., David E., Amit I. & Itzkovitz S. (2017), Nature. 542, 7641, p. 352-+
  • Genome-wide identification and expression profiling of long non-coding RNAs in auditory and vestibular systems

    Authors: Ushakov K., Koffler-Brill T., Rom A., Perl K., Ulitsky I. & Avraham K. B. (2017), Scientific Reports. 7, 1, 8637
  • Dynamic Proteomics of Herpes Simplex Virus Infection

    Authors: Drayman N., Karin O., Mayo A., Danon T., Shapira L., Rafael D., Zimmer A., Bren A., Kobiler O. & Alon U. (2017), mBio. 8, 6, ARTN e0161
  • Post-dieting weight gain: The role of persistent microbiome changes

    Authors: Thaiss C. A., Shapiro H. & Elinav E. (2017), Future Microbiology. 12, 7, p. 555-559
  • Dysbiosis and the immune system

    Authors: Levy M., Kolodziejczyk A. A., Thaiss C. A. & Elinav E. (2017), Nature Reviews Immunology. 17, 4, p. 219-232
  • Maya Schuldiner

    Authors: Schuldiner M. (2017), Current Biology. 27, 18, p. R982-R984
  • Lighting Up ERK Activity

    Authors: Shilo B. & Barkai N. (2017), Developmental Cell. 40, 2, p. 115-116
  • The gut microbiome and hypertension

    Authors: Pevsner-Fischer M., Blacher E., Tatirovsky E., Ben-Dov I. & Elinav E. (2017), Current Opinion in Nephrology and Hypertension. 26, 1, p. 1-8
  • Mef2C restrains microglial inflammatory response and is lost in brain ageing in an IFN-I-dependent manner

    Authors: Deczkowska A., Matcovitch-Natan O., Tsitsou-Kampeli A., Ben-Hamo S., Dvir-Szternfeld R., Spinrad A., Singer O., David E., Winter D. R., Smith L. K., Kertser A., Baruch K., Rosenzweig N., Terem A., Prinz M., Villeda S., Citri A., Amit I. & Schwartz M. (2017), Nature Communications. 8, 1, 717
  • A reduced-dimensionality approach to uncovering dyadic modes of body motion in conversations

    Authors: Gaziv G., Noy L., Liron Y. & Alon U. (2017), PLoS ONE. 12, 1, e0170786
  • The genetic basis for the adaptation of E-coli to sugar synthesis from CO2

    Authors: Herz E., Antonovsky N., Bar-On Y., Davidi D., Gleizer S., Prywes N., Noda-Garcia L., Frisch K. L., Zohar Y., Wernick D. G., Savidor A., Barenholz U. & Milo R. (2017), Nature Communications. 8, 1705
  • Vesicles Spread Susceptibility to Phages

    Authors: Ofir G. & Sorek R. (2017), Cell. 168, 1-2, p. 13-15
  • Optimality and sub-optimality in a bacterial growth law

    Authors: Towbin B. D., Korem Y., Bren A., Doron S., Sorek R. & Alon U. (2017), Nature Communications. 8, 14123
  • Systematic Investigation of Transcription Factor Activity in the Context of Chromatin Using Massively Parallel Binding and Expression Assays

    Authors: Levo M., Avnit-Sagi T., Lotan-Pompan M., Kalma Y., Weinberger A., Yakhini Z. & Segal E. (2017), Molecular Cell. 65, 4, p. 604-+
  • Role of biomechanical forces in hyperfiltration-mediated glomerular injury in congenital anomalies of the kidney and urinary tract

    Authors: Srivastava T., Thiagarajan G., Alon U. S., Sharma R., El-Meanawy A., McCarthy E. T., Savin V. J. & Sharma M. (2017), Nephrology Dialysis Transplantation. 32, 5, p. 759-765
  • AML1-ETO requires enhanced C/D box snoRNA/RNP formation to induce self-renewal and leukaemia

    Authors: Zhou F., Liu Y., Rohde C., Pauli C., Gerloff D., Koehn M., Misiak D., Baeumer N., Cui C., Goellner S., Oellerich T., Serve H., Garcia-Cuellar M., Slany R., Maciejewski J. P., Przychodzen B., Seliger B., Klein H., Bartenhagen C., Berdel W. E., Dugas M., Taketo M. M., Farouq D., Schwartz S., Regev A., Hebert J., Sauvageau G., Pabst C., Huettelmaier S. & Mueller-Tidow C. (2017), Nature Cell Biology. 19, 7, p. 844-855
  • Systematic Epigenomic Analysis Reveals Chromatin States Associated with Melanoma Progression

    Authors: Fiziev P., Akdemir K. C., Miller J. P., Keung E. Z., Samant N. S., Sharma S., Natale C. A., Terranova C. J., Maitituoheti M., Amin S. B., Martinez-Ledesma E., Dhamdhere M., Axelrad J. B., Shah A., Cheng C. S., Mahadeshwar H., Seth S., Barton M. C., Protopopov A., Tsai K. Y., Davies M. A., Garcia B. A., Amit I., Chin L., Ernst J. & Rai K. (2017), Cell Reports. 19, 4, p. 875-889
  • Dicer Deficiency Differentially Impacts Microglia of the Developing and Adult Brain

    Authors: Varol D., Mildner A., Blank T., Shemer A., Barashi N., Yona S., David E., Boura-Halfon S., Segal-Hayoun Y., Chappell-Maor L., Keren-Shaul H., Leshkowitz D., Hornstein E., Fuhrmann M., Amit I., Maggio N., Prinz M. & Jung S. (2017), Immunity. 46, 6, p. 1030-1044.e8
  • Proteins evolve on the edge of supramolecular self-assembly

    Authors: Garcia-Seisdedos H., Empereur-Mot C., Elad N. & Levy E. D. (2017), Nature. 548, 7666, p. 244-247
  • The remedy within: will the microbiome fulfill its therapeutic promise?

    Authors: Thaiss C. A. & Elinav E. (2017), Journal of Molecular Medicine. 95, 10, p. 1021-1027
  • The Role of the Immune System in Metabolic Health and Disease

    Authors: Zmora N., Bashiardes S., Levy M. & Elinav E. (2017), Cell Metabolism. 25, 3, p. 506-521
  • Method for Labeling Transcripts in Individual Escherichia coli Cells for Single-molecule Fluorescence In Situ Hybridization Experiments

    Authors: Arbel-Goren R., Shapira Y. & Stavans J. (2017), Journal of Visualized Experiments. 130, 56600
  • Gene Architectures that Minimize Cost of Gene Expression

    Authors: Frumkin I., Schirman D., Rotman A., Li F., Zahavi L., Mordret E., Asraf O., Wu S., Levy S. F. & Pilpel Y. (2017), Molecular Cell. 65, 1, p. 142-153
  • Breaking the population barrier by single cell analysis: one host against one pathogen

    Authors: Mills E. & Avraham R. (2017), Current Opinion in Microbiology. 36, p. 69-75
  • Microbiome at the Frontier of Personalized Medicine

    Authors: Kashyap P. C., Chia N., Nelson H., Segal E. & Elinav E. (2017), Mayo Clinic Proceedings. 92, 12, p. 1855-1864
  • Energetic cost of building a virus

  • Computational prediction of regulatory, premature transcription termination in bacteria

    Authors: Millman A., Dar D., Shamir M. & Sorek R. (2017), Nucleic Acids Research. 45, 2, p. 886-893
  • Model-based analysis of DNA replication profiles: predicting replication fork velocity and initiation rate by profiling free-cycling cells

    Authors: Gispan A., Carmi M. & Barkai N. (2017), Genome Research. 27, 2, p. 310-319
  • Systemic Human ILC Precursors Provide a Substrate for Tissue ILC Differentiation

    Authors: Lim A. I., Li Y., Lopez-Lastra S., Stadhouders R., Paul F., Casrouge A., Serafini N., Puel A., Bustamante J., Surace L., Masse-Ranson G., David E., Strick-Marchand H., Le Bourhis B. L., Cocchi R., Topazio D., Graziano P., Muscarella L. A., Rogge L., Norel X., Sallenave J., Allez M., Graf T., Hendriks R. W., Casanova J., Amit I., Yssel H. & Di Santo S. J. P. (2017), Cell. 168, 6, p. 1086-1100.e10
  • APOL1-Mediated Cell Injury Involves Disruption of Conserved Trafficking Processes

    Authors: Kruzel-Davila E., Shemer R., Ofir A., Bavli-Kertselli I., Darlyuk-Saadon I., Oren-Giladi P., Wasser W. G., Magen D., Zaknoun E., Schuldiner M., Salzberg A., Kornitzer D., Marelja Z., Simons M. & Skorecki K. (2017), Journal Of The American Society Of Nephrology. 28, 4, p. 1117-1130
  • Our Gut Microbiome: The Evolving Inner Self

    Authors: Kundu P., Blacher E., Elinav E. & Pettersson S. (2017), Cell. 171, 7, p. 1481-1493
  • Expression homeostasis during DNA replication

    Authors: Voichek Y., Bar-Ziv R. & Barkai N. (2017),
  • Cinacalcet as an alternative to phosphate therapy in X-linked hypophosphataemic rickets

    Authors: Alon U. S., Jarka D., Monachino P. J., VanSickle J. S. & Srivastava T. (2017),
  • Creative foraging: An experimental paradigm for studying exploration and discovery

    Authors: Hart Y., Mayo A. E., Mayo R., Rozenkrantz L., Tendler A., Alon U. & Noy L. (2017), PLoS ONE. 12, 8, e0182133
  • Next-generation sequencing technologies for detection of modified nucleotides in RNAs

    Authors: Schwartz S. & Motorin Y. (2017), RNA Biology. 14, 9, p. 1124-1137
  • Spatial transcriptomics: paving the way for tissue-level systems biology

    Authors: Moor A. E. & Itzkovitz S. (2017), Current Opinion in Biotechnology. 46, p. 126-133
  • Relevance of iPSC-derived human PGC-like cells at the surface of embryoid bodies to prechemotaxis migrating PGCs

    Authors: Mitsunaga S., Odajima J., Yawata S., Shioda K., Owa C., Isselbacher K. J., Shioda T. & Hanna J. (. (2017), Proceedings Of The National Academy Of Sciences Of The United States Of America-Physical Sciences. 114, 46, p. E9913-E9922
  • Biphasic response as a mechanism against mutant takeover in tissue homeostasis circuits

    Authors: Karin O. & Alon U. (2017), Molecular Systems Biology. 13, 6, 933
  • Bread Affects Clinical Parameters and Induces Gut Microbiome-Associated Personal Glycemic Responses

    Authors: Korem T., Zeevi D., Zmora N., Weissbrod O., Bar N., Lotan-Pompan M., Avnit Sagi S. T., Kosower N., Malka G., Rein M., Suez J., Goldberg B. Z., Weinberger A., Levy A., Elinav E. & Segal E. (2017), Cell Metabolism. 25, 6, p. 1243-1253
  • Corrigendum: TRUB1 is the predominant pseudouridine synthase acting on mammalian mRNA via a predictable and conserved code

    Authors: Safra M., Nir R., Farouq D., Vainberg Slutskin I. & Schwartz S. (2017),
  • Definition of a High-Confidence Mitochondrial Proteome at Quantitative Scale

    Authors: Morgenstern M., Stiller S. B., Lübbert P., Peikert C. D., Dannenmaier S., Drepper F., Weill U., Höß P., Feuerstein R., Gebert M., Bohnert M., van der Laan M., Schuldiner M., Schütze C., Oeljeklaus S., Pfanner N., Wiedemann N. & Warscheid B. (2017), Cell Reports. 19, 13, p. 2836-2852
  • Microbiome-modulated metabolites at the interface of host immunity

    Authors: Blacher E., Levy M., Tatirovsky E. & Elinav E. (2017), Journal of Immunology. 198, 2, p. 572-580
  • Characterization of proteome dynamics during growth in oleate reveals a new peroxisome-targeting receptor

    Authors: Yifrach E., Chuartzman S., Dahan N., Maskit S., Zada L., Weill U., Yofe I., Olender T., Schuldiner M. & Zalckvar E. (2016), Journal of Cell Science. 129, 21, p. 4067-4075
  • Microglia development follows a stepwise program to regulate brain homeostasis

    Authors: Matcovitch-Natan O., Winter D. R., Giladi A., Vargas Aguilar A. S., Spinrad A., Sarrazin S., Ben-Yehuda H., David E., Zelada Gonzalez G. F., Perrin P., Keren-Shaul H., Gury M., Lara-Astaiso D., Thaiss C. A., Cohen M., Bahar Halpern H. K., Baruch K., Deczkowska A., Lorenzo Vivas V. E., Itzkovitz S., Elinav E., Sieweke M. H., Schwartz M. & Amit I. (2016), Science. 353, 6301, aad8670
  • Corrigendum: Failure to replicate the STAP cell phenomenon (vol 525, pg E6, 2015)

    Authors: De Los Angeles A., Ferrari F., Fujiwara Y., Mathieu R., Lee S., Lee S., Tu H., Ross S., Chou S., Minh Nguyen, Wu Z., Theunissen T. W., Powell B. E., Imsoonthornruksa S., Chen J., Borkent M., Krupalnik V., Lujan E., Wernig M., Hanna J. H., Hochedlinger K., Pei D., Jaenisch R., Deng H., Orkin S. H., Park P. J. & Daley G. Q. (2016),
  • Biological causal links on physiological and evolutionary time scales

    Authors: Karmon A. & Pilpel Y. (2016), eLife. 5, APRIL2016, e14424
  • The genetic program of pancreatic β-cell replication in vivo

    Authors: Klochendler A., Caspi I., Corem N., Moran M., Friedlich O., Elgavish S., Nevo Y., Helman A., Glaser B., Eden A., Itzkovitz S. & Dor Y. (2016), Diabetes. 65, 7, p. 2081-2093
  • Accuracy of Answers to Cell Lineage Questions Depends on Single-Cell Genomics Data Quality and Quantity.

    Authors: Spiro A. & Shapiro E. (2016), PLoS Computational Biology. 12, 6, 1004983
  • 3’UTR Shortening Potentiates MicroRNA-Based Repression of Pro-differentiation Genes in Proliferating Human Cells

    Authors: Hoffman Y., Bublik D. R., Ugalde A. P., Elkon R., Biniashvili T., Agami R., Oren M. & Pilpel Y. (2016), PLoS Genetics. 12, 2, e1005879
  • Environmentally Optimal, Nutritionally Aware Beef Replacement Plant-Based Diets

    Authors: Eshel G., Shepon A., Noor E. & Milo R. (2016), Environmental Science and Technology. 50, 15, p. 8164-8168
  • CRISPR-Cas adaptation: Insights into the mechanism of action

    Authors: Amitai G. & Sorek R. (2016), Nature Reviews Microbiology. 14, 2, p. 67-76
  • Talking about cross-talk: The immune system and the microbiome

    Authors: Zeevi D., Korem T. & Segal E. (2016), GENOME BIOLOGY. 17, 1, 50
  • Evolutionary analysis across mammals reveals distinct classes of long non-coding RNAs

    Authors: Chen J., Shishkin A. A., Zhu X., Kadri S., Maza I., Guttman M., Hanna J. H., Regev A. & Garber M. (2016), GENOME BIOLOGY. 17, 1, 19
  • A Tunable Mechanism Determines the Duration of the Transgenerational Small RNA Inheritance in C. elegans

    Authors: Houri-Ze'evi L., Korem Y., Sheftel H., Faigenbloom L., Toker I. A., Dagan Y., Awad L., Degani L., Alon U. & Rechavi O. (2016), Cell. 165, 1, p. 88-99
  • Expression homeostasis during DNA replication

    Authors: Voichek Y., Bar-Ziv R. & Barkai N. (2016), Science. 351, 6277, p. 1087-1090
  • Mice lacking WRB reveal differential biogenesis requirements of tail-anchored proteins in vivo

    Authors: Rivera-Monroy J., Musiol L., Unthan-Fechner K., Farkas A., Clancy A., Coy-Vergara J., Weill U., Gockel S., Lin S., Corey D. P., Kohl T., Stroebel P., Schuldiner M., Schwappach B. & Vilardi F. (2016), Scientific Reports. 6, 39464
  • Would you like to play together? Adults' attachment and the mirror game

    Authors: Feniger-Schaal R., Noy L., Hart Y., Koren-Karie N., Mayo A. E. & Alon U. (2016), Attachment and Human Development. 18, 1, p. 33-45
  • A systematic view on influenza induced host shutoff

    Authors: Bercovich-Kinori A., Tai J., Gelbart I. A., Shitrit A., Ben Moshe M. S., Drori Y., Itzkovitz S., Mandelboim M. & Stern-Ginossar N. (2016), eLife. 5, AUGUST, e18311
  • Metabolites: messengers between the microbiota and the immune system

    Authors: Levy M., Thaiss C. A. & Elinav E. (2016), GENES & DEVELOPMENT. 30, 14, p. 1589-1597
  • LIMT is a novel metastasis inhibiting lncRNA suppressed by EGF and downregulated in aggressive breast cancer

    Authors: Sas-Chen A., Aure M. R., Leibovich L., Carvalho S., Enuka Y., Korner C., Polycarpou-Schwarz M., Lavi S., Nevo N., Kuznetsov Y., Yuan J., Azuaje F., Ulitsky I., Diederichs S., Wiemann S., Yakhini Z., Kristensen V. N., Borresen-Dale A. & Yarden Y. (2016), EMBO Molecular Medicine. 8, 9, p. 1052-1064
  • Rapid evolutionary adaptation to growth on an 'unfamiliar' carbon source

    Authors: Tamari Z., Yona A. H., Pilpel Y. & Barkai N. (2016), BMC Genomics. 17, 1, 674
  • The functions of long noncoding RNAs in development and stem cells

    Authors: Ulitsky I. & Perry R. (2016), Development. 143, 21, p. 3882-3894
  • Regulation of membrane trafficking during glucose starvation

    Authors: Hong H., Martinez-Marquez J. Y., Gal L., Schuldiner M. & Duncan M. C. (2016),
  • A conserved abundant cytoplasmic long noncoding RNA modulates repression by Pumilio proteins in human cells

    Authors: Tichon A., Gil N., Lubelsky Y., Solomon T. H., Lemze D., Itzkovitz S., Stern-Ginossar N. & Ulitsky I. (2016), Nature Communications. 7, 12209
  • Pyruvate formate-lyase enables efficient growth of Escherichia coli on acetate and formate

    Authors: Zelcbuch L., Lindner S. N., Zegman Y., Slutskin I. V., Antonovsky N., Gleizer S., Milo R. & Bar-Even A. (2016), Biochemistry. 55, 17, p. 2423-2426
  • Natural Diversity in Pentose Fermentation Is Explained by Variations in Histone Deacetylases

    Authors: Tamari Z. & Barkai N. (2016), Cell Reports. 14, 3, p. 458-463
  • Repeat Size Determination by Two Molecular Rulers in the Type I-E CRISPR Array

    Authors: Goren M. G., Doron S., Globus R., Amitai G., Sorek R. & Qimron U. (2016), Cell Reports. 16, 11, p. 2811-2818
  • SnapShot: Timescales in Cell Biology

    Authors: Shamir M., Bar-On Y., Phillips R. & Milo R. (2016),
  • CEACAM1-Mediated Inhibition of Virus Production

    Authors: Vitenshtein A., Weisblum Y., Hauka S., Halenius A., Oiknine-Djian E., Tsukerman P., Bauman Y., Bar-On Y., Stern-Ginossar N., Enk J., Ortenberg R., Tai J., Markel G., Blumberg R. S., Hengel H., Jonjic S., Wolf D. G., Adler H., Kammerer R. & Mandelboim O. (2016), Cell Reports. 15, 11, p. 2331-2339
  • Are We Really Vastly Outnumbered? Revisiting the Ratio of Bacterial to Host Cells in Humans

    Authors: Sender R., Fuchs S. & Milo R. (2016),
  • Prediction of multidimensional drug dose responses based on measurements of drug pairs

    Authors: Zimmer A., Katzir I., Dekel E., Mayo A. E., Alon U., Arcavi I., Challis P., Chambers K. C., Chen T. -., Cowperthwaite P. S., Gal-Yam A., Hosseinzadeh G., Howell D. A., Inserra C., Kankare E., Magnier E. A., Maguire K., Mazzali P. A., McCully C., Milisavljevic D., Smith K. W., Taubenberger S., Valenti S., Wainscoat R. J., Yaron O. & Young D. R. (2016), Proceedings of the National Academy of Sciences of the United States of America. 113, 37, p. 10442-10447
  • Microbiota Diurnal Rhythmicity Programs Host Transcriptome Oscillations

    Authors: Thaiss C., Levy M., Korem T., Dohnalova L., Shapiro H., Jaitin D., David E., Winter D., Gury-BenAri M., Tatirovsky E., Tuganbaev T., Federici S., Zmora N., Zeevi D., Dori-Bachash M., Pevsner-Fischer M., Kartvelishvily E., Brandis A., Harmelin A., Shibolet O., Halpern Z., Honda K., Amit I., Segal E. & Elinav E. (2016), Cell. 167, 6, p. 1495-1510.e12
  • Use of metatranscriptomics in microbiome research

    Authors: Bashiardes S., Zilberman-Schapira G. & Elinav E. (2016), Bioinformatics and Biology Insights. 10, p. 19-25
  • The role of the local environment and epigenetics in shaping macrophage identity and their effect on tissue homeostasis

    Authors: Amit I., Winter D. R. & Jung S. (2016), Nature Immunology. 17, 1, p. 18-25
  • Young phosphorylation is functionally silent

    Authors: Matalon O., Dubreuil B. & Levy E. D. (2016), Science. 354, 6309, p. 176-177
  • A perspective on single cell behavior during infection

    Authors: Avraham R. & Hung D. T. (2016), Gut Microbes. 7, 6, p. 518-525
  • Tissue- and Time-Specific Expression of Otherwise Identical tRNA Genes

    Authors: Sagi D., Rak R., Gingold H., Adir I., Maayan G., Dahan O., Broday L., Pilpel Y. & Rechavi O. (2016), PLoS Genetics. 12, 8, e1006264
  • Dynamic stem cell states: Naive to primed pluripotency in rodents and humans

    Authors: Weinberger L., Ayyash M., Novershtern N. & Hanna J. (2016), Nature Reviews Molecular Cell Biology. 17, 3, p. 155-169
  • Natural selection underlies apparent stress-induced mutagenesis in a bacteriophage infection model

    Authors: Yosef I., Edgar R., Levy A., Amitai G., Sorek R., Munitz A., Qimron U., Mueller B., Tarkowski P. & Weiss D. (2016), Nature Microbiology. 1, 6, 16047
  • Cinacalcet as adjunctive therapy in pseudohypoparathyroidism type 1b

    Authors: Srivastava T., Krudys J., Mardis N. J., Sebestyen-VanSickle J. & Alon U. S. (2016), Pediatric Nephrology. 31, 5, p. 795-800
  • Regioselectivity of third-row maingroup dicarbides, C2X (X = K-Br) for CO interaction: Fukui function and topological analyses

    Authors: Parida S. K., Sahu S., Sharma S., Mao R., Pevsner-Fischer M., Ben-horin S., Elinav E., Zeng Z., Chen B., He Y., Xiang A. P. & Chen M. (2016), Chemical Physics Letters. 659, p. 216-220
  • eSTGt: A programming and simulation environment for population dynamics

    Authors: Spiro A. & Shapiro E. (2016), BMC Bioinformatics. 17, 1, 187
  • Non-alcoholic fatty liver and the gut microbiota

    Authors: Bashiardes S., Shapiro H., Rozin S., Shibolet O. & Elinav E. (2016), Molecular Metabolism. 5, 9, p. 782-794
  • Comparative transcriptomics across the prokaryotic tree of life

    Authors: Cohen O., Doron S., Wurtzel O., Dar D., Edelheit S., Karunker I., Mick E. & Sorek R. (2016), Nucleic Acids Research. 44, W1, p. W46-W53
  • Persistent microbiome alterations modulate the rate of post-dieting weight regain

    Authors: Thaiss C. A., Itav S., Rothschild D., Meijer M. T., Levy M., Moresi C., Dohnalová L., Braverman S., Rozin S., Malitsky S., Dori-Bachash M., Kuperman Y., Biton I., Gertler A., Harmelin A., Shapiro H., Halpern Z., Aharoni A., Segal E. & Elinav E. (2016), Nature. 540, 7634, p. 544-551
  • PD-1 immune checkpoint blockade reduces pathology and improves memory in mouse models of Alzheimer's disease

    Authors: Baruch K., Deczkowska A., Rosenzweig N., Tsitsou-Kampeli A., Sharif A. M., Matcovitch-Natan O., Kertser A., David E., Amit I. & Schwartz M. (2016), Nature Medicine. 22, 2, p. 135-137
  • Evolution to the rescue: Using comparative genomics to understand long non-coding RNAs

    Authors: Ulitsky I. (2016), Nature Reviews Genetics. 17, 10, p. 601-614
  • Mitochondrial 16S rRNA Is Methylated by tRNA Methyltransferase TRMT61B in All Vertebrates

    Authors: Bar-Yaacov D., Frumkin I., Yashiro Y., Chujo T., Ishigami Y., Chemla Y., Blumberg A., Schlesinger O., Bieri P., Greber B., Ban N., Zarivach R., Alfonta L., Pilpel Y., Suzuki T. & Mishmar D. (2016), PLoS Biology. 14, 9, e1002557
  • Pax6 role in the regulation of retinal pigmented epithelium maturation

    Authors: Cohen Y., Blinder P., Idelson M., Reubinoff B., Itzkovitz S. & Ashery-Padan R. (2016),
  • Manipulating the placebo response in experimental pain by altering doctor's performance style

    Authors: Czerniak E., Biegon A., Ziv A., Karnieli-Miller O., Weiser M., Alon U. & Citron A. (2016), Frontiers in Psychology. 7, JUN, 874
  • The mutation spectrum in genomic late replication domains shapes mammalian GC content

    Authors: Kenigsberg E., Yehuda Y., Marjavaara L., Keszthelyi A., Chabes A., Tanay A. & Simon I. (2016), Nucleic Acids Research. 44, 9, p. 4222-4232
  • Exit from synchrony in joint improvised motion

    Authors: Dahan A., Noy L., Hart Y., Mayo A. & Alon U. (2016), PLoS ONE. 11, 10, e0160747
  • Making Sense of the Yeast Sphingolipid Pathway

    Authors: Megyeri M., Riezman H., Schuldiner M. & Futerman A. H. (2016), Journal of Molecular Biology. 428, 24, p. 4765-4775
  • Water-Transfer Slows Aging in Saccharomyces cerevisiae

    Authors: Cohen A., Weindling E., Rabinovich E., Nachman I., Fuchs S., Chuartzman S., Gal L., Schuldiner M. & Bar-Nun S. (2016), PLoS ONE. 11, 2, 0148650
  • Energy and protein feed-to-food conversion efficiencies in the US and potential food security gains from dietary changes

    Authors: Shepon A., Eshel G., Noor E. & Milo R. (2016), Environmental Research Letters. 11, 10, 105002
  • Combgap Promotes Ovarian Niche Development and Chromatin Association of EcR-Binding Regions in BR-C

    Authors: Hitrik A., Popliker M., Gancz D., Mukamel Z., Lifshitz A., Schwartzman O., Tanay A. & Gilboa L. (2016), PLoS Genetics. 12, 11, e1006330
  • Parkinson disease (PARK) genes are somatically mutated in cutaneous melanoma

    Authors: Inzelberg R., Samuels Y., Azizi E., Qutob N., Inzelberg L., Domany E., Schechtman E. & Friedman E. (2016), Neurology: Genetics. 2, 3, e70
  • A highly multiplexed and sensitive RNA-seq protocol for simultaneous analysis of host and pathogen transcriptomes

    Authors: Avraham R., Haseley N., Fan A., Bloom-Ackermann Z., Livny J. & Hung D. T. (2016), Nature protocols. 11, 8, p. 1477-1491
  • The multicellular nature of filamentous heterocyst-forming cyanobacteria

    Authors: Herrero A., Stavans J. & Flores E. (2016), FEMS Microbiology Reviews. 40, 6, p. 831-854
  • A Tether is a Tether is a Tether: Tethering at Membrane Contact Sites

    Authors: Eisenberg-Bord M., Shai N., Schuldiner M. & Bohnert M. (2016), Developmental Cell. 39, 4, p. 395-409
  • Distinct biological events generated by ECM proteolysis by two homologous collagenases

    Authors: Solomonov I., Zehorai E., Talmi-Frank D., Wolf S. G., Shainskaya A., Zhuravlev A., Kartvelishvily E., Visse R., Levin Y., Kampf N., Jaitin D. A., David E., Amit I., Nagase H. & Sagi I. (2016), Proceedings of the National Academy of Sciences of the United States of America. 113, 39, p. 10884-10889
  • Taking it Personally: Personalized Utilization of the Human Microbiome in Health and Disease

    Authors: Zmora N., Zeevi D., Korem T., Segal E. & Elinav E. (2016), Cell Host & Microbe. 19, 1, p. 12-20
  • Transcriptome dynamics of a broad host-range cyanophage and its hosts

    Authors: Doron S., Fedida A., Hernndez-Prieto M. A., Sabehi G., Karunker I., Stazic D., Feingersch R., Steglich C., Futschik M., Lindell D. & Sorek R. (2016), ISME Journal. 10, 6, p. 1437-1455
  • Post-translational modification profiling - A novel tool for mapping the protein modification landscape in cancer

    Authors: Eisenberg-Lerner A., Ciechanover A. & Merbl Y. (2016), Experimental Biology and Medicine. 241, 14, p. 1475-1482
  • Extracellular Matrix Proteolysis by MT1-MMP Contributes to Influenza-Related Tissue Damage and Mortality

    Authors: Talmi-Frank D., Altboum Z., Solomonov I., Udi Y., Jaitin D. A., Klepfish M., David E., Zhuravlev A., Keren-Shaul H., Winter D. R., Gat-Viks I., Mandelboim M., Ziv T., Amit I. & Sagi I. (2016), Cell Host & Microbe. 20, 4, p. 458-470
  • A role for Rtt109 in buffering gene-dosage imbalance during DNA replication

    Authors: Voichek Y., Bar-Ziv R. & Barkai N. (2016), Nucleus-Austin. 7, 4, p. 375-381
  • Capturing pairwise and multi-way chromosomal conformations using chromosomal walks

    Authors: Olivares-Chauvet P. H., Mukamel Z., Lifshitz A., Schwartzman O., Elkayam N., Lubling Y., Deikus G., Sebra R. & Tanay A. (2016), Nature. 540, 7632, p. 296-300
  • Adjuvant Autologous Melanoma Vaccine for Macroscopic Stage III Disease: Survival, Biomarkers, and Improved Response to CTLA-4 Blockade

    Authors: Lotem M., Merims S., Frank S., Hamburger T., Nissan A., Kadouri L., Cohen J., Straussman R., Eisenberg G., Frankenburg S., Carmon E., Alaiyan B., Shneibaum S., Ayyildiz Z. O., Isbilen M., Senses K. M., Ron I., Steinberg H., Smith Y., Shiloni E., Gure A. O. & Peretz T. (2016), Journal of Immunology Research. 2016, 8121985
  • Voices Of Biotech

    Authors: Amit I., Baker D., Barker R., Berger B., Bertozzi C., Bhatia S., Biffi A., Demichelis F., Doudna J., Dowdy S. F., Endy D., Helmstaedter M., Junca H., June C., Kamb S., Khvorova A., Kim D., Kim J., Krishnan Y., Lakadamyali M., Lappalainen T., Lewin S., Liao J., Loman N., Lundberg E., Lynd L., Martin C., Mellman I., Miyawaki A., Mummery C., Nelson K., Paz J., Peralta-Yahya P., Picotti P., Polyak K., Prather K., Qin J., Quake S., Regev A., Rogers J. A., Shetty R., Sommer M., Stevens M., Stolovitzky G., Takahashi M., Tang F., Teichmann S., Torres-Padilla M., Tripathi L., Vemula P., Verdine G., Vollmer F., Wang J., Ying J. Y., Zhang F. & Zhang T. (2016), Nature Biotechnology. 34, 3, p. 270-275
  • A two-step patterning process increases the robustness of periodic patterning in the fly eye

    Authors: Gavish A. & Barkai N. (2016), Journal of Biological Physics. 42, 3, p. 317-338
  • The microbiome and innate immunity

    Authors: Thaiss C. A., Zmora N., Levy M. & Elinav E. (2016), Nature. 535, 7610, p. 65-74
  • A unique assemblage of engraved plaquettes from Ein Qashish South, Jezreel Valley, Israel: Figurative and non-figurative symbols of late pleistocene hunters-gatherers in the levant

    Authors: Yaroshevich A., Bar-Yosef O., Boaretto E., Caracuta V., Greenbaum N., Porat N., Roskin J. & Alon U. (2016), PLoS ONE. 11, 8, e0160687
  • The Protein Cost of Metabolic Fluxes: Prediction from Enzymatic Rate Laws and Cost Minimization

    Authors: Noor E., Flamholz A., Bar-Even A., Davidi D., Milo R. & Liebermeister W. (2016), PLoS Computational Biology. 12, 11, e1005167
  • The gut microbiome in human immunodeficiency virus infection

    Authors: Zilberman G., Zmora N., Itav S., Bashiardes S., Elinav H. & Elinav E. (2016),
  • M-sec regulates polarized secretion of inflammatory endothelial chemokines and facilitates CCL2-mediated lymphocyte transendothelial migration

    Authors: Barzilai S., Blecher-Gonen R., Barnett Itzhaki Z., Zauberman A., Lebel-Haziv Y., Amit I. & Alon R. (2016), Journal of Leukocyte Biology. 99, 6, p. 1045-1055
  • One library to make them all: Streamlining the creation of yeast libraries via a SWAp-Tag strategy

    Authors: Yofe I., Weill U., Meurer M., Chuartzman S., Zalckvar E., Goldman O., Ben-Dor S., Schutze C., Wiedemann N., Knop M., Khmelinskii A. & Schuldiner M. (2016), Nature Methods. 13, 4, p. 371-378
  • Dynamical compensation in physiological circuits

    Authors: Karin O., Swisa A., Glaser B., Dor Y. & Alon U. (2016), Molecular Systems Biology. 12, 11, 886
  • Integration of Innate Immune Signaling.

    Authors: Thaiss C. A., Levy M., Itav S. & Elinav E. (2016), Trends in Immunology. 37, 2, p. 84-101, 101
  • The Spectrum and Regulatory Landscape of Intestinal Innate Lymphoid Cells Are Shaped by the Microbiome

    Authors: Gury-BenAri M., Thaiss C. A., Serafini N., Winter D. R., Giladi A., Lara Astiaso A. D., Levy M., Salame T. M., Weiner A., David E., Shapiro H., Dori-Bachash M., Pevsner-Fischer M., Lorenzo Vivas V. E., Keren-Shaul H., Paul F., Harmelin A., Eberl G., Itzkovitz S., Tanay A., Di Santo S. J. P., Elinav E. & Amit I. (2016), Cell. 166, 5, p. 1231-1246.e13
  • Rethinking cell growth models

    Authors: Kafri M., Metzl-Raz E., Jonas F. & Barkai N. (2016),
  • Widespread formation of alternative 3' UTR isoforms via transcription termination in archaea

    Authors: Dar D., Prasse D., Schmitz R. A. & Sorek R. (2016), Nature Microbiology. 1, 10, 16143
  • The Protease Ste24 Clears Clogged Translocons

    Authors: Ast T., Michaelis S. & Schuldiner M. (2016), Cell. 164, 1-2, p. 103-114
  • Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq

    Authors: Jaitin D. A., Weiner A., Yofe I., Lara Astiaso D., Keren-Shaul H., David E., Salame T. M., Tanay A., van Oudenaarden A. & Amit I. (2016), Cell. 167, 7, p. 1883-1896.e15
  • A network-based analysis of colon cancer Splicing changes reveals a tumorigenesis-favoring regulatory pathway emanating from ELK1

    Authors: Hollander D., Donyo M., Atias N., Mekahel K., Melamed Z., Yannai S., Lev-Maor G., Shilo A., Schwartz S., Barshack I., Sharan R. & Ast G. (2016), Genome Research. 26, 4, p. 541-553
  • Periodic patterning of the Drosophila eye is stabilized by the diffusible activator Scabrous

    Authors: Gavish A., Shwartz A., Weizman A., Schejter E., Shilo B. & Barkai N. (2016), Nature Communications. 7, 10461
  • Transcript degradation and noise of small RNA-controlled genes in a switch activated network in Escherichia coli

    Authors: Arbel-Goren R., Tal A., Parasar B., Dym A., Costantino N., Munoz-Garcia J., Court D. L. & Stavans J. (2016), Nucleic Acids Research. 44, 14, p. 6707-6720
  • Global characterization of in vivo enzyme catalytic rates and their correspondence to in vitro kcat measurements

    Authors: Davidi D., Noor E., Liebermeister W., Bar-Even A., Flamholz A., Tummler K., Barenholz U., Goldenfeld M., Shlomi T. & Milo R. (2016), PNAS. 113, p. 3401–3406
  • A WntD-Dependent Integral Feedback Loop Attenuates Variability in Drosophila Toll Signaling

    Authors: Rahimi N., Averbukh I., Haskel Ittah I. M., Degani N., Schejter E., Barkai N. & Shilo B. (2016), Developmental Cell. 36, 4, p. 401-414
  • An unrecognized function for COPII components in recruiting the viral replication protein BMV 1a to the perinuclear ER

    Authors: Li J., Fuchs S., Zhang J., Wellford S., Schuldiner M. & Wang X. (2016), Journal of Cell Science. 129, 19, p. 3597-3608
  • Bursting Through The Cell Cycle

    Authors: Ben Moshe M. S. & Itzkovitz S. (2016), eLife. 5, e14953
  • The SND proteins constitute an alternative targeting route to the endoplasmic reticulum

    Authors: Aviram N., Ast T., Costa E. A., Arakel E. C., Chuartzman S. G., Jan C. H., Hassenteufel S., Dudek J., Jung M., Schorr S., Zimmermann R., Schwappach B., Weissman J. S. & Schuldiner M. (2016), eLife. 540, 7631, p. 134-+
  • Co-ChIP enables genome-wide mapping of histone mark co-occurrence at single-molecule resolution

    Authors: Weiner A., Lara Astiaso A. D., Krupalnik V., Gafni O., David E., Winter D. R., Hanna J. H. & Amit I. (2016), Nature biotechnology. 34, 9, p. 953-961
  • Protein-fragment complementation assays for large-scale analysis, functional dissection, and spatiotemporal dynamic studies of protein-protein interactions in living cells

    Authors: Michnick S. W., Landry C. R., Levy E. D., Diss G., Ear P. H., Kowarzyk J., Malleshaiah M. K., Messier V. & Tchekanda E. (2016), Cold Spring Harbor Protocols. 2016, 11, p. 917-919
  • A minimalistic resource allocation model to explain ubiquitous increase in protein expression with growth rate

    Authors: Barenholz U., Keren L., Segal E. & Milo R. (2016), PLoS ONE. 11, 4, 0153344
  • Massively Parallel Interrogation of the Effects of Gene Expression Levels on Fitness

    Authors: Keren L., Hausser J., Lotan-Pompan M., Vainberg Slutskin I., Alisar H., Kaminski S., Weinberger A., Alon U., Milo R. & Segal E. (2016), Cell. 166, 5, p. 1282-1294.e18
  • Glucose becomes one of the worst carbon sources for E.coli on poor nitrogen sources due to suboptimal levels of cAMP

    Authors: Bren A., Park J. O., Towbin B. D., Dekel E., Rabinowitz J. D. & Alon U. (2016), Scientific Reports. 6, 24834
  • Chromatin dynamics during DNA replication

    Authors: Bar-Ziv R., Voichek Y. & Barkai N. (2016), Genome Research. 26, 9, p. 1245-1256
  • The Cost of Protein Production

    Authors: Kafri M., Metzl-Raz E., Jona G. & Barkai N. (2016), Cell Reports. 14, 1, p. 22-31
  • Automated video analysis of non-verbal communication in a medical setting

    Authors: Hart Y., Czerniak E., Karnieli-Miller O., Mayo A. E., Ziv A., Biegon A., Citron A. & Alon U. (2016), Frontiers in Psychology. 7, AUG, 01130
  • Role of the microbiome in non-gastrointestinal cancers

    Authors: Pevsner-Fischer M., Tuganbaev T., Meijer M., Zhang S., Zeng Z., Chen M. & Elinav E. (2016), World Journal of Clinical Oncology. 7, 2, p. 200-213
  • A generic, cost-effective, and scalable cell lineage analysis platform

    Authors: Biezuner T., Spiro A., Raz O., Amir S., Milo L., Adar R., Chapal Ilani I. N., Berman V., Fried Y., Ainbinder E., Cohen G., Barr H. M., Halaban R. & Shapiro E. (2016), Genome Research. 26, 11, p. 1588-1599
  • Circular RNAs are long-lived and display only minimal early alterations in response to a growth factor

    Authors: Enuka Y., Lauriola M., Feldman M. E., Sas-Chen A., Ulitsky I. & Yarden Y. (2016), Nucleic Acids Research. 44, 3, p. 1370-1383
  • Sumoylation coordinates the repression of inflammatory and anti-viral gene-expression programs during innate sensing

    Authors: Decque A., Joffre O., Magalhaes J. G., Cossec J. C., Blecher-Gonen R., Lapaquette P., Silvin A., Manel N., Joubert P. E., Seeler J. S., Albert M. L., Amit I., Amigorena S. & Dejean A. (2016), Nature Immunology. 17, 2, p. 140-149
  • Cracking the epitranscriptome

    Authors: Schwartz S. (2016), RNA. 22, 2, p. 169-174
  • Tumor evolution inferred by patterns of microRNA expression through the course of disease, therapy, and recurrence in breast cancer

    Authors: Dadiani M., Ben-Moshe N. B., Paluch-Shimon S., Perry G., Balint N., Marin I., Pavlovski A., Morzaev D., Kahana-Edwin S., Yosepovich A., Gal-Yam E. N., Berger R., Barshack I., Domany E. & Kaufman B. (2016), Clinical Cancer Research. 22, 14, p. 3651-3662
  • No peroxisome is an island - Peroxisome contact sites

    Authors: Shai N., Schuldiner M. & Zalckvar E. (2016), Biochimica et Biophysica Acta - Molecular Cell Research. 1863, 5, p. 1061-1069
  • CRISPR–Cas: Spacer Diversity Determines the Efficiency of Defense

    Authors: Lopatina A. & Sorek R. (2016),
  • Evolution of domain-peptide interactions to coadapt specificity and affinity to functional diversity

  • Single molecule approaches for quantifying transcription and degradation rates in intact mammalian tissues

    Authors: Bahar Halpern K. & Itzkovitz S. (2016), Methods. 98, p. 134-142
  • An essential role for UTX in resolution and activation of bivalent promoters

    Authors: Dhar S. S., Lee S., Chen K., Zhu G., Oh W., Allton K., Gafni O., Kim Y. Z., Tomoiga A. S., Barton M. C., Hanna J. H., Wang Z., Li W. & Lee M. G. (2016), Nucleic Acids Research. 44, 8, p. 3659-3674
  • Term-seq reveals abundant ribo-regulation of antibiotics resistance in bacteria

    Authors: Dar D., Shamir M., Mellin J. R., Koutero M., Stern-Ginossar N., Cossart P. & Sorek R. (2016), Science. 352, 6282, aad9822
  • Dealing with Gene-Dosage Imbalance during S Phase

    Authors: Bar-Ziv R., Voichek Y. & Barkai N. (2016), Trends in Genetics. 32, 11, p. 717-723
  • Methods for distinguishing between protein-coding and long noncoding RNAs and the elusive biological purpose of translation of long noncoding RNAs

  • PH determines the energetic efficiency of the cyanobacterial CO2 concentrating mechanism

    Authors: Mangan N. M., Flamholz A., Hood R. D., Milo R. & Savage D. F. (2016), Proceedings of the National Academy of Sciences of the United States of America. 113, 36, p. E5354-E5362
  • The dihydrofolate reductase protein-fragment complementation assay: A survival-selection assay for large-scale analysis of protein-protein interactions

    Authors: Michnick S. W., Levy E. D., Landry C. R., Kowarzyk J. & Messier V. (2016), Cold Spring Harbor Protocols. 2016, 11, p. 963-971
  • Sugar Synthesis from CO2 in Escherichia coli

    Authors: Antonovsky N., Gleizer S., Noor E., Zohar Y., Herz E., Barenholz U., Zelcbuch L., Amram S., Wides A., Tepper N., Davidi D., Bar-On Y., Bareia T., Wernick D. G., Shani I., Malitsky S., Jona G., Bar-Even A. & Milo R. (2016), Cell. 166, 1, p. 115-125
  • Revised Estimates for the Number of Human and Bacteria Cells in the Body

    Authors: Sender R., Fuchs S. & Milo R. (2016), PLoS Biology. 14, 8, e1002533
  • Comparative genetics: Systematic discovery of cap-independent translation sequences in human and viral genomes

    Authors: Weingarten-Gabbay S., Elias-Kirma S., Nir R., Gritsenko A. A., Stern-Ginossar N., Yakhini Z., Weinberger A. & Segal E. (2016), Science. 351, 6270, aad4939
  • Synthesis and cell-free cloning of DNA libraries using programmable microfluidics

    Authors: Ben-Yehezkel T., Rival A., Raz O., Cohen R., Marx Z., Camara M., Dubern J., Koch B., Heeb S., Krasnogor N., Delattre C. & Shapiro E. (2016), Nucleic Acids Research. 44, 4, e35
  • Cell scientist to watch - Maya Schuldiner

    Authors: Bobrowska A. & Schuldiner M. (2015), Journal of Cell Science. 128, 22, p. 4029-4031
  • A Regression-Based Analysis of Ribosome-Profiling Data Reveals a Conserved Complexity to Mammalian Translation

    Authors: Fields A. P., Rodriguez E. H., Jovanovic M., Stern-Ginossar N., Haas B. J., Mertins P., Raychowdhury R., Hacohen N., Carr S. A., Ingolia N. T., Regev A. & Weissman J. S. (2015), Molecular Cell. 60, 5, p. 816-827
  • Nuclear Retention of mRNA in Mammalian Tissues

    Authors: Halpern K. B., Caspi I., Lemze D., Levy M., Landen S., Elinav E., Ulitsky I. & Itzkovitz S. (2015), Cell Reports. 13, 12, p. 2653-2662
  • Decoding a neural circuit controlling global animal state in C-elegans

    Authors: Laurent P., Soltesz Z., Nelson G., Chen C., Arellano-Carbajal F., Levy E. & de Bono M. (2015), eLife. 4, 04241
  • Reactivation of epigenetically silenced miR-512 and miR-373 sensitizes lung cancer cells to cisplatin and restricts tumor growth

    Authors: Harel S., Ben-Moshe N., Aylon Y., Bublik D., Moskovits N., Toperoff G., Azaiza D., Biagoni F., Fuchs G., Wilder S., Hellman A., Blandino G., Domany E. & Oren M. (2015), Cell Death and Differentiation. 22, p. 1328-1340
  • Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

    Authors: Paul F., Arkin Y., Giladi A., Jaitin D. A., Kenigsberg E., Keren-Shaul H., Winter D., Lara-Astiaso D., Gury M., Weiner A., David E., Cohen N., Lauridsen F. K. B., Haas S., Schlitzer A., Mildner A., Ginhoux F., Jung S., Trumpp A., Porse B. T., Tanay A. & Amit I. (2015), Cell. 163, 7, p. 1663-1677
  • Growth dynamics of gut microbiota in health and disease inferred from single metagenomic samples

    Authors: Korem T., Zeevi D., Suez J., Weinberger A., Avnit Sagi S. T., Pompan-Lotan M., Matot E., Jona G., Harmelin A., Cohen N., Sirota-Madi A., Thaiss C. A., Pevsner-Fischer M., Sorek R., Xavier R. J., Elinav E. & Segal E. (2015), Science (New York, N.Y.). 349, 6252, p. 1101-1106
  • DNA crossover motifs associated with epigenetic modifications delineate open chromatin regions in arabidopsis

    Authors: Shilo S., Melamed-Bessudo C., Dorone Y., Barkai N. & Levy A. (2015), The Plant cell. 27, 9, p. 2427-2436
  • Peroxisystem: Harnessing systems cell biology to study peroxisomes

    Authors: Schuldiner M. & Zalckvar E. (2015), Biology of the Cell. 107, 4, p. 89-97
  • Lipid Droplets Are Essential for Efficient Clearance of Cytosolic Inclusion Bodies

    Authors: Moldavski O., Amen T., Levin-Zaidman S., Eisenstein M., Rogachev I., Brandis A., Kaganovich D. & Schuldiner M. (2015), Developmental Cell. 33, 5, p. 603-610
  • Quantitative visualization of alternative exon expression from RNA-seq data

    Authors: Katz Y., Wang E. T., Silterra J., Schwartz S., Wong B., Thorvaldsdottir H., Robinson J. T., Mesirov J. P., Airoldi E. M. & Burge C. B. (2015), Bioinformatics. 31, 14, p. 2400-2402
  • Reply to tichenor: Proposed update to beef greenhouse gas footprint is numerically questionable and well within current uncertainty bounds

    Authors: Eshel G., Shepon A., Makov T. & Milo R. (2015),
  • One library to make them all: Streamlining yeast library creation by a SWAp-Tag (SWAT) strategy

    Authors: Weill U., Yofe I., Chuartzman S. & Schuldiner M. (2015), Yeast. 32, p. S77-S77
  • Taming the inflammasome

    Authors: Levy M., Thaiss C. A. & Elinav E. (2015),
  • Microbiota-Modulated Metabolites Shape the Intestinal Microenvironment by Regulating NLRP6 Inflammasome Signaling

    Authors: Levy M., Thaiss C. A., Zeevi D., Dohnalova L., Zilberman-Schapira G., Mahdi J. A., David E., Savidor A., Korem T., Herzig Y., Pevsner-Fischer M., Shapiro H., Christ A., Harmelin A., Halpern Z., Latz E., Flavell R. A., Amit I., Segal E. & Elinav E. (2015), Cell. 163, 6, p. 1428-1443
  • SOX17 Is a Critical Specifier of Human Primordial Germ Cell Fate

    Authors: Irie N., Weinberger L., Tang W. W. C., Kobayashi T., Viukov S., Manor Y. S., Dietmann S., Hanna J. H. & Surani M. A. (2015), Cell. 160, 1-2, p. 253-268
  • Third Report on Chicken Genes and Chromosomes 2015:

    Authors: Schmid M., Smith J., Burt D. W., Aken B. L., Antin P. B., Archibald A. L., Ashwell C., Blackshear P. J., Boschiero C., Brown C. T., Burgess S. C., Cheng H. H., Chow W., Coble D. J., Cooksey A., Crooijmans R. P., Damas J., Davis R. V., De Koning D. J., Delany M. E., Derrien T., Desta T. T., Dunn I. C., Dunn M., Ellegren H., Eöry L., Erb I., Farré M., Fasold M., Fleming D., Flicek P., Fowler K. E., Frésard L., Froman D. P., Garceau V., Gardner P. P., Gheyas A. A., Griffin D. K., Groenen M. A., Haaf T., Hanotte O., Hart A., Häsler J., Hedges S. B., Hertel J., Howe K., Hubbard A., Hume D. A., Kaiser P., Kedra D., Kemp S. J., Klopp C., Kniel K. E., Kuo R., Lagarrigue S., Lamont S. J., Larkin D. M., Lawal R. A., Markland S. M., McCarthy F., McCormack H. A., McPherson M. C., Motegi A., Muljo S. A., Münsterberg A., Nag R., Nanda I., Neuberger M., Nitsche A., Notredame C., Noyes H., O'Connor R., O'Hare E. A., Oler A. J., Ommeh S. C., Pais H., Persia M., Pitel F., Preeyanon L., Prieto Barja P., Pritchett E. M., Rhoads D. D., Robinson C. M., Romanov M. N., Rothschild M., Roux P. F., Schmidt C. J., Schneider A. S., Schwartz M. G., Searle S. M., Skinner M. A., Smith C. A., Stadler P. F., Steeves T. E., Steinlein C., Sun L., Takata M., Ulitsky I., Wang Q., Wang Y., Warren W. C., Wood J. M., Wragg D. & Zhou H. (2015), Cytogenetic and Genome Research. 145, 2, p. 78-179
  • Making the case for chromatin profiling: A new tool to investigate the immune-regulatory landscape

    Authors: Winter D. R., Jung S. & Amit I. (2015), Nature Reviews Immunology. 15, 9, p. 585-594
  • Noise in gene expression is coupled to growth rate

    Authors: Keren L., Van Dijk D. D., Weingarten-Gabbay S., Davidi D., Jona G., Weinberger A., Milo R. & Segal E. (2015), Genome Research. 25, p. 1893-1902
  • Derivation of novel human ground state naive pluripotent stem cells (vol 504, pg 282, 2013): Derivation of novel human ground state naive pluripotent stem cells

    Authors: Gafni O., Weinberger L., Mansour A. A., Manor Y. S., Chomsky E., Ben-Yosef D., Kalma Y., Viukov S., Maza I., Zviran A., Rais Y., Shipony Z., Mukamel Z., Krupalnik V., Zerbib M., Geula S., Caspi I., Schneir D., Shwartz T., Gilad S., Amann-Zalcenstein D., Benjamin S., Amit I., Tanay A., Massarwa R., Novershtern N. & Hanna J. H. (2015), Nature. 520, 7549, p. 710
  • High-resolution chromatin dynamics during a yeast stress response

    Authors: Weiner A., Hsieh T. S., Appleboim A., Chen H. V., Rahat A., Amit I., Rando O. J. & Friedman N. (2015), Molecular Cell. 58, 2, p. 371-386
  • Regulation of mRNA translation during mitosis

    Authors: Tanenbaum M. E., Stern-Ginossar N., Weissman J. S. & Vale R. D. (2015), eLife. 4, AUGUST2015, e07957
  • DCs are ready to commit

    Authors: Winter D. & Amit I. (2015),
  • Diversion of aspartate in ASS1-deficient tumours fosters de novo pyrimidine synthesis

    Authors: Rabinovich S., Adler L., Yizhak K., Sarver A., Silberman A., Agron S., Stettner N., Sun Q., Brandis A., Helbling D., Korman S., Itzkovitz S., Dimmock D., Ulitsky I., Nagamani S. C. S., Ruppin E. & Erez A. (2015), Nature. 527, 7578, p. 379-383
  • MicroRNAs silence the noisy genome

    Authors: Hoffman Y. & Pilpel Y. (2015),
  • Partitioning United States' feed consumption among livestock categories for improved environmental cost assessments

    Authors: Eshel G., Shepon A., Makov T. & Milo R. (2015), Journal of Agricultural Science. 153, 3, p. 432-445
  • Integration of gene expression and GWAS results supports involvement of calcium signaling in Schizophrenia

    Authors: Hertzberg L., Katsel P., Roussos P., Haroutunian V. & Domany E. (2015), Schizophrenia Research. 164, 1-3, p. 92-99
  • Lymphatic vessels arise from specialized angioblasts within a venous niche

    Authors: Nicenboim J., Malkinson G., Lupo T., Asaf L., Sela Y., Mayseless O., Gibbs-Bar L., Senderovich N., Hashimshony T., Shin M. S., Jerafi-Vider A., Avraham-Davidi I., Krupalnik V., Hofi R., Almog G., Astin J. W., Golani O., Ben-Dor S., Crosier P. S., Herzog W., Lawson N. D., Hanna J. H., Yanai I. & Yaniv K. (2015), Nature. 522, 7554, p. 56-61
  • A cellular and regulatory map of the cholinergic nervous system of C. elegans

    Authors: Pereira L., Kratsios P. P., Serrano-Saiz E., Sheftel H., Mayo A. E., Hall D. H., White J. G., LeBoeuf B., Garcia L. R., Alon U. & Hobert O. (2015), eLife. 4, DECEMBER2015, 12432
  • Epithelial IL-18 Equilibrium Controls Barrier Function in Colitis

    Authors: Nowarski R., Jackson R., Gagliani N., de Zoete M. R., Palm N. W., Bailis W., Low J. S., Harman C. C. D., Graham M., Elinav E. & Flavell R. A. (2015), Cell. 163, 6, p. 1444-1456
  • Chronobiomics: The Biological Clock as a New Principle in Host–Microbial Interactions

    Authors: Thaiss C. A., Levy M. & Elinav E. (2015), PLoS Pathogens. 11, 10, e1005113
  • Spatial Fluctuations in Expression of the Heterocyst Differentiation Regulatory Gene hetR in Anabaena Filaments

    Authors: Corrales-Guerrero L., Tal A., Arbel-Goren R., Mariscal V., Flores E., Herrero A. & Stavans J. (2015), PLoS Genetics. 11, 4, 1005031
  • The Moderately Efficient Enzyme: Futile Encounters and Enzyme Floppiness

    Authors: Bar-Even A., Milo R., Noor E. & Tawfik D. (2015), Biochemistry. 54, 32, p. 4969–4977
  • Evolutionary tradeoffs, Pareto optimality and the morphology of ammonite shells

    Authors: Tendler A., Mayo A. & Alon U. (2015), BMC Systems Biology. 9, 12
  • Personalized Nutrition by Prediction of Glycemic Responses

    Authors: Zeevi D., Korem T., Zmora N., Israeli D., Rothschild D., Weinberger A., Ben-Yacov O., Lador D., Avnit Sagi S. T., Lotan-Pompan M., Suez J., Mahdi J. A., Matot E., Malka G., Kosower N., Rein M., Zilberman-Schapira G., Dohnalova L., Pevsner-Fischer M., Bikovsky R., Halpern Z., Elinav E. & Segal E. (2015), Cell. 163, 5, p. 1079-1094
  • m6A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation

    Authors: Geula S., Moshitch-Moshkovitz S., Dominissini D., Mansour A. A., Kol N., Salmon-Divon M., Hershkovitz V., Peer E., Mor N., Manor Y. S., Ben-Haim M., Eyal E., Yunger S., Pinto Y., Jaitin D. A., Viukov S., Rais Y., Krupalnik V., Chomsky E., Zerbib M., Maza I., Rechavi Y., Massarwa R., Hanna S., Amit I., Levanon E. Y., Amariglio N., Stern-Ginossar N., Novershtern N., Rechavi G. & Hanna J. H. (2015), Science. 347, 6225, p. 1002-1006
  • Each cell counts: Hematopoiesis and immunity research in the era of single cell genomics

    Authors: Jaitin D. A., Keren-Shaul H., Elefant N. & Amit I. (2015), Seminars in Immunology. 27, 1, p. 67-71
  • Starvation-Dependent Regulation of Golgi Quality Control Links the TOR Signaling and Vacuolar Protein Sorting Pathways

    Authors: Dobzinski N., Chuartzman S. G., Kama R., Schuldiner M. & Gerst J. (2015), Cell Reports. 12, 11, p. 1876-1886
  • NF-κB Regulation by NLRs: T Cells Join the Club

    Authors: Thaiss C. A. & Elinav E. (2015),
  • Rationally designed, heterologous s. cerevisiae transcripts expose novel expression determinants

    Authors: Ben-Yehezkel T., Atar S., Zur H., Diament A., Goz E., Marx T., Cohen R., Dana A., Feldman A., Shapiro E. & Tuller T. (2015), RNA Biology. 12, 9, p. 972-984
  • Aging, clonal hematopoiesis and preleukemia: not just bad luck?

    Authors: Shlush L. I., Zandi S., Itzkovitz S. & Schuh A. C. (2015), International Journal of Hematology. 102, 5, p. 513-522
  • Lam6 Regulates the Extent of Contacts between Organelles

    Authors: Elbaz-Alon Y., Eisenberg-Bord M., Shinder V., Stiller S. B., Shimoni E., Wiedemann N., Geiger T. & Schuldiner M. (2015), Cell Reports. 12, 1, p. 7-14
  • The J protein Djp1 is involved in the targeting of mitochondrial precursor proteins

    Authors: Hansen K. G., Aviram N., Schuldiner M. & Herrmann J. M. (2015), FEBS Journal. 282, p. 101-101
  • Dynamic profiling of the protein life cycle in response to pathogens

    Authors: Jovanovic M., Rooney M. S., Mertins P., Przybylski D., Chevrier N., Satija R., Rodriguez E. H., Fields A. P., Schwartz S., Raychowdhury R., Mumbach M. R., Eisenhaure T., Rabani M., Gennert D., Lu D., Delorey T., Weissman J. S., Carr S. A., Hacohen N. & Regev A. (2015), Science. 347, 6226, 1259038
  • Evolution of Bow-Tie Architectures in Biology

    Authors: Friedlander T., Mayo A. E., Tlusty T. & Alon U. (2015), PLoS Computational Biology. 11, 3, e1004055
  • Decoding viral infection by ribosome profiling

    Authors: Stern-Ginossar N. (2015), Journal of Virology. 89, 12, p. 6164-6166
  • Systematic Dissection of the Sequence Determinants of Gene 3’ End Mediated Expression Control

    Authors: Shalem O., Sharon E., Lubliner S., Regev I., Lotan-Pompan M., Yakhini Z. & Segal E. (2015), PLoS Genetics. 11, 4, e1005147
  • BREX is a novel phage resistance system widespread in microbial genomes

    Authors: Goldfarb T., Sberro H., Weinstock E., Cohen O., Doron S., Charpak-Amikam Y., Afik S., Ofir G. & Sorek R. (2015), EMBO Journal. 34, 2, p. 169-183
  • From mass cytometry to cancer prognosis

    Authors: Winter D. R., Ledergor G. & Amit I. (2015),
  • Failure to replicate the STAP cell phenomenon

    Authors: De Los Angeles L. A. A., Ferrari F., Fujiwara Y., Mathieu R., Lee S., Lee S., Tu H., Ross S., Chou S., Nguyen M., Wu Z., Theunissen T. W., Powell B. E., Imsoonthornruksa S., Chen J., Borkent M., Krupalnik V., Lujan E., Wernig M., Hanna J. H., Hochedlinger K., Pei D., Jaenisch R., Deng H., Orkin S. H., Park P. J. & Daley G. Q. (2015), Nature. 525, 7570, p. E6-E9
  • Down-regulation of LATS kinases alters p53 to promote cell migration

    Authors: Furth N., Bossel Ben-Moshe B. N., Pozniak Y., Porat Z., Geiger T., Domany E., Aylon Y. & Oren M. (2015), Genes and Development. 29, p. 2325-2330
  • Comparative Hi-C Reveals that CTCF Underlies Evolution of Chromosomal Domain Architecture

    Authors: Vietri Rudan M., Barrington C., Henderson S., Ernst C., Odom D. T., Tanay A. & Hadjur S. (2015), Cell Reports. 10, 8, p. 1297-1309
  • A Relay Race on the Evolutionary Adaptation Spectrum

    Authors: Yona A. H., Frumkin I. & Pilpel Y. (2015), Cell. 163, 3, p. 549-559
  • Ribosome Profiling As A Tool To Decipher Viral Complexity

    Authors: Stern-Ginossar N. & Ingolia N. T. (2015), Annual Review of Virology. 2, p. 335-349
  • Inflammasomes and the microbiota—partners in the preservation of mucosal homeostasis

    Authors: Levy M., Thaiss C. A., Katz M. N., Suez J. & Elinav E. (2015), Seminars in Immunopathology. 37, 1, p. 39-46
  • Geometry of the Gene Expression Space of Individual Cells

    Authors: Korem Y., Szekely P., Hart Y., Sheftel H., Hausser J., Mayo A., Rothenberg M. E., Kalisky T. & Alon U. (2015), PLoS Computational Biology. 11, 7, e1004224
  • Transcription factor binding dynamics during human ES cell differentiation

    Authors: Tsankov A. M., Gu H., Akopian V., Ziller M. J., Donaghey J., Amit I., Gnirke A. & Meissner A. (2015), Nature. 518, 7539, p. 344-349
  • Transient acquisition of pluripotency during somatic cell transdifferentiation with iPSC reprogramming factors

    Authors: Maza I., Caspi I., Zviran A., Chomsky E., Rais Y., Viukov S., Geula S., Buenrostro J., Weinberger L., Krupalnik V., Hanna S., Zerbib M., Dutton J., Greenleaf W., Massarwa R., Novershtern N. & Hanna J. (2015), Nature biotechnology. 33, 7, p. 769-774
  • GenoExp: A web tool for predicting gene expression levels from single nucleotide polymorphisms

    Authors: Manor O. & Segal E. (2015), Bioinformatics. 31, 11, p. 1848-1850
  • Distinct Murine Mucosal Langerhans Cell Subsets Develop from Pre-dendritic Cells and Monocytes

    Authors: Capucha T., Mizraji G., Segev H., Blecher-Gonen R., Winter D., Khalaileh A., Tabib Y., Attal T., Nassar M., Zelentsova K., Kisos H., Zenke M., Sere K., Hieronymus T., Burstyn-Cohen T., Amit I., Wilensky A. & Hovav A. (2015), Immunity. 43, 2, p. 369-381, 3135
  • Inferring biological tasks using Pareto analysis of high-dimensional data

    Authors: Hart Y., Sheftel H., Hausser J., Szekely P., Ben-Moshe N. B., Korem Y., Tendler A., Mayo A. E. & Alon U. (2015), Nature Methods. 12, 3, p. 233-+
  • The Transcription and Translation Landscapes during Human Cytomegalovirus Infection Reveal Novel Host-Pathogen Interactions

    Authors: Tirosh O., Cohen Y., Shitrit A., Shani O., Le-Trilling V. T. K., Trilling M., Friedlander G., Tanenbaum M. & Stern-Ginossar N. (2015), PLoS Pathogens. 11, 11, e1005288
  • Pathogen Cell-to-Cell Variability Drives Heterogeneity in Host Immune Responses

    Authors: Avraham R., Haseley N., Brown D., Penaranda C., Jijon H. B., Trombetta J. J., Satija R., Shalek A. K., Xavier R. J., Regev A. & Hung D. T. (2015), Cell. 162, 6, p. 1309-1321
  • Deterministic direct reprogramming of somatic cells to pluripotency (vol 502, pg 65, 2013): Deterministic direct reprogramming of somatic cells to pluripotency (Nature (2013) 502 (65-70) DOI: 10.1038/nature12587)

    Authors: Rais Y., Zviran A., Geula S., Gafni O., Chomsky E., Viukov S., Mansour A. A., Caspi I., Krupalnik V., Zerbib M., Maza I., Mor N., Baran D., Weinberger L., Jaitin D. A., Lara-Astiaso D., Blecher-Gonen R., Shipony Z., Mukamel Z., Hagai T., Gilad S., Amann-Zalcenstein D., Tanay A., Amit I., Novershtern N. & Hanna J. H. (2015), Nature. 520, 7549, p. 710-710
  • Editorial overview: Genome architecture and expression

    Authors: Panning B. & Segal E. (2015), Current opinion in genetics & development. 31, p. v-vi
  • Editorial overview: Cell organelles: Organelle communication: New means and new views

    Authors: Schuldiner M. & Guo W. (2015), Current Opinion in Cell Biology. 35, p. v-vi
  • Single-cell Hi-C for genome-wide detection of chromatin interactions that occur simultaneously in a single cell

    Authors: Nagano T., Lubling Y., Yaffe E., Wingett S. W., Dean W., Tanay A. & Fraser P. (2015), Nature protocols. 10, 12, p. 1986-2003
  • Corrective jitter motion shows similar individual frequencies for the arm and the finger

    Authors: Noy L., Alon U. & Friedman J. (2015), Experimental Brain Research. 233, 4, p. 1307-1320
  • Guanine polynucleotides are self-antigens for human natural autoantibodies and are significantly reduced in the human genome

    Authors: Fattal I., Shental N., Ben-Dor S., Molad Y., Gabrielli A., Pokroy-Shapira E., Oren S., Livneh A., Langevitz P., Zandman-Goddard G., Sarig O., Margalit R., Gafter U., Domany E. & Cohen I. R. (2015), Immunology. 146, 3, p. 401-410
  • Symmetry Breaking in Homo-Oligomers: The Curious Case of Mega-Hemocyanin

    Authors: Seisdedos H. G., Steinberg A. & Levy E. D. (2015), Structure. 23, 1, p. 3-5
  • The Evolutionary Potential of Phenotypic Mutations

    Authors: Yanagida H., Gispan A., Kadouri N., Rozen S., Sharon M., Barkai N. & Tawfik D. S. (2015), PLoS Genetics. 11, 8, 1005445
  • Metagenomic cross-talk: The regulatory interplay between immunogenomics and the microbiome

    Authors: Levy M., Thaiss C. A. & Elinav E. (2015), Genome Medicine. 7, 1, 120
  • The Mass-Longevity Triangle: Pareto Optimality and the Geometry of Life-History Trait Space

    Authors: Szekely P., Korem Y., Moran U., Mayo A. & Alon U. (2015), PLoS Computational Biology. 11, 10, e1004524
  • Simultaneous measurement of genome-wide transcription elongation speeds and rates of RNA polymerase II transition into active elongation with 4sUDRB-seq

    Authors: Fuchs G., Voichek Y., Rabani M., Benjamin S., Gilad S., Amit I. & Oren M. (2015), Nature protocols. 10, 4, p. 605-618
  • Chromosome 7 gain and DNA hypermethylation at the HOXA10 locus are associated with expression of a stem cell related HOX-signature in glioblastoma

    Authors: Kurscheid S., Bady P., Sciuscio D., Samarzija I., Shay T., Vassallo I., Criekinge W. V., Daniel R. T., van den Bent d. B. M. J., Marosi C., Weller M., Mason W. P., Domany E., Stupp R., Delorenzi M. & Hegi M. E. (2015), Genome Biology. 16, 1, 16
  • Recurrent inactivating RASA2 mutations in melanoma

    Authors: Arafeh R., Qutob N., Emmanuel R., Keren-Paz A., Madore J., Elkahloun A., Wilmott J. S., Gartner J. J., Di Pizio A., Winograd-Katz S., Sindiri S., Rotkopf R., Dutton-Regester K., Johansson P., Pritchard A. L., Waddell N., Hill V. K., Lin J. C., Hevroni Y., Rosenberg S. A., Khan J., Ben-Dor S., Niv M. Y., Ulitsky I., Mann G. J., Scolyer R. A., Hayward N. K. & Samuels Y. (2015), Nature Genetics. 47, 12, p. 1408-1410
  • Bursty gene expression in the intact mammalian liver

    Authors: Halpern K. B., Tanami S., Landen S., Chapal M., Szlak L., Hutzler A., Nizhberg A. & Itzkovitz S. (2015), Molecular Cell. 58, 1, p. 147-156
  • A novel regulator determines the extent of contacts between organelles

    Authors: Schuldiner M. (2015), FEBS Journal. 282, SI, p. 10-10
  • Genome-Wide Screens in Saccharomyces cerevisiae Highlight a Role for Cardiolipin in Biogenesis of Mitochondrial Outer Membrane Multispan Proteins.

    Authors: Sauerwald J., Jores T., Eisenberg-Bord M., Chuartzman S. G., Schuldiner M. & Rapaport D. (2015), Molecular and Cellular Biology. 35, 18, p. 3200-3211
  • Artificial Sweeteners Induce Glucose Intolerance by Altering the Gut Microbiota: Editorial comment

    Authors: Suez J., Korem T., Zeevi D., Zilberman-Schapira G., Thaiss C. A., Maza O., Israeli D., Zmora N., Gilad S., Weinberger A., Kuperman Y., Harmelin A., Kolodkin-Gal I., Shapiro H., Halpern Z., Segal E. & Elinav E. (2015),
  • An in vivo metabolic approach for deciphering the product specificity of glycerate kinase proves that both E. coli's glycerate kinases generate 2-phosphoglycerate

    Authors: Zelcbuch L., Razo-Mejia M., Herz E., Yahav S., Antonovsky N., Kroytoro H., Milo R. & Bar-Even A. (2015), PLoS ONE. 10, 3, e0122957
  • The Lamarckian chicken and the Darwinian egg

    Authors: Pilpel Y. & Rechavi O. (2015),
  • Single-cell epigenomics: techniques and emerging applications

    Authors: Schwartzman O. & Tanay A. (2015), Nature Reviews Genetics. 16, 12, p. 716-726
  • Pathway-based personalized analysis of breast cancer expression data

    Authors: Livshits A., Git A., Fuks G., Caldas C. & Domany E. (2015), Molecular Oncology. 9, 7, p. 1471-1483
  • CRISPR adaptation biases explain preference for acquisition of foreign DNA

    Authors: Levy A., Goren M. G., Yosef I., Auster O., Manor M., Amitai G., Edgar R., Qimron U. & Sorek R. (2015), Nature. 520, 7548, p. 505-510
  • The interplay between the innate immune system and the microbiota

    Authors: Thaiss C. A., Levy M., Suez J. & Elinav E. (2014), Current Opinion in Immunology. 26, 1, p. 41-48
  • Pregnancy-associated listeriosis: Clinical characteristics and geospatial analysis of a 10-year period in Israel

    Authors: Elinav H., Hershko-Klement A., Valinsky L., Jaffe J., Wiseman A., Shimon H., Braun E., Paitan Y., Block C., Sorek R. & Nir-Paz R. (2014), Clinical Infectious Diseases. 59, 7, p. 953-961
  • Epstein-Barr virus antibodies mark systemic lupus erythematosus and scleroderma patients negative for anti-DNA

    Authors: Fattal I., Shental N., Molad Y., Gabrielli A., Pokroy-Shapira E., Oren S., Livneh A., Langevitz P., Pauzner R., Sarig O., Gafter U., Domany E. & Cohen I. R. (2014), Immunology. 141, 2, p. 276-285
  • Aging-induced immunological signature of the brain's choroid plexus negatively regulates neurogenesis and cognitive function

    Authors: Deczkowska A., Baruch K., David E., Castellano J. M., Miller O., Kertser A., Berkutzki T., Barnett Itzhaki I. Z., Bezalel D., Wyss-coray T., Amit I. & Schwartz M. (2014),
  • A Comprehensive tRNA Deletion Library Unravels the Genetic Architecture of the tRNA Pool

    Authors: Bloom-Ackermann Z., Navon S., Gingold H., Towers R., Pilpel Y. & Dahan O. (2014), PLoS Genetics. 10, 1, e1004084
  • Visual account of protein investment in cellular functions

    Authors: Liebermeister W., Noor E., Flamholz A., Davidi D., Bernhardt J. & Milo R. (2014), Proceedings of the National Academy of Sciences of the United States of America. 111, 23, p. 8488-8493
  • Artificial sweeteners induce glucose intolerance by altering the gut microbiota

    Authors: Suez J., Korem T., Zeevi D., Zilberman-Schapira G., Thaiss C. A., Maza O., Israeli D., Zmora N., Gilad S., Weinberger A., Kuperman Y., Harmelin A., Kolodkin-Gal I., Shapiro H., Halpern Z., Segal E. & Elinav E. (2014), Nature. 514, 7521, p. 181-186
  • Phenotypic noise: Effects of post-transcriptional regulatory processes affecting mRNA

    Authors: Arbel-Goren R., Tal A. & Stavans J. (2014), Wiley Interdisciplinary Reviews-Rna. 5, 2, p. 197-207
  • A shared architecture for promoters and enhancers

    Authors: Weingarten-Gabbay S. & Segal E. (2014),
  • Embracing the void-how much do we really know about targeting and translocation to the endoplasmic reticulum?

    Authors: Aviram N. & Schuldiner M. (2014), Current Opinion in Cell Biology. 29, 1, p. 8-17
  • In pursuit of design principles of regulatory sequences

    Authors: Levo M. & Segal E. (2014), Nature Reviews Genetics. 15, 7, p. 453-468
  • The emergence of proteome-wide technologies: Systematic analysis of proteins comes of age

    Authors: Breker M. & Schuldiner M. (2014), Nature Reviews Molecular Cell Biology. 15, 7, p. 453-464
  • Fur is the master regulator of the extraintestinal pathogenic Escherichia coli response to serum

    Authors: Huja S., Oren Y., Biran D., Meyer S., Dobrindt U., Bernhard J., Becher D., Hecker M., Sorek R. & Ron E. Z. (2014), mBio. 5, 4, e01460-14
  • Peroxisomes are juxtaposed to strategic sites on mitochondria

    Authors: Cohen Y., Klug Y., Dimitrov L., Erez Z., Chuartzman S., Elinger D., Yofe I., Soliman K., Gartner J., Thoms S., Schekman R., Elbaz-Alon Y., Zalckvar E. & Schuldiner M. (2014), Molecular BioSystems. 10, 7, p. 1742-1748
  • Host-parasite network structure is associated with community-level immunogenetic diversity

    Authors: Pilosof S., Fortuna M. A., Cosson J. F., Galan M., Kittipong C., Ribas A., Segal E., Krasnov B. R., Morand S. & Bascompte J. (2014), Nature Communications. 5, 5172
  • Molecular rules governing de novo methylation in cancer

    Authors: Nejman D., Straussman R., Steinfeld I., Ruvolo M., Roberts D., Yakhini Z. & Cedar H. (2014), Cancer Research. 74, 5, p. 1475-1483
  • Single cell analysis exposes intratumor heterogeneity and suggests that FLT3-ITD is a late event in leukemogenesis

    Authors: Shouval R., Shlush L. I., Yehudai-Resheff S., Ali S., Pery N., Shapiro E., Tzukerman M., Rowe J. M. & Zuckerman T. (2014), Experimental Hematology. 42, 6, p. 457-463
  • Plasticity in the transcriptional and epigenetic circuits regulating dendritic cell lineage specification and function

    Authors: Paul F. & Amit I. (2014), Current Opinion in Immunology. 30, 1, p. 1-8
  • Identification of novel DNA-damage tolerance genes reveals regulation of translesion DNA synthesis by nucleophosmin

    Authors: Ziv O., Zeisel A., Mirlas-Neisberg N., Swain U., Nevo R., Ben Chetrit C. N., Martelli M. P., Rossi R., Schiesser S., Canman C. E., Carell T., Geacintov N. E., Falini B., Domany E. & Livneh Z. (2014), Nature Communications. 5, 5437
  • Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types

    Authors: Jaitin D. A., Kenigsberg E., Keren-Shaul H., Elefant N., Paul F., Zaretsky I., Mildner A., Cohen N., Jung S., Tanay A. & Amit I. (2014), Science. 343, 6172, p. 776-779
  • Perturbation of m6A writers reveals two distinct classes of mRNA methylation at internal and 5' sites

    Authors: Schwartz S., Mumbach M. R., Jovanovic M., Wang T., Maciag K., Bushkin G. G., Mertins P., Ter-Ovanesyan D., Habib N., Cacchiarelli D., Sanjana N. E., Freinkman E., Pacold M. E., Satija R., Mikkelsen T. S., Hacohen N., Zhang F., Carr S. A., Lander E. S. & Regev A. (2014), Cell Reports. 8, 1, p. 284-296
  • A simple cage-autonomous method for the maintenance of the barrier status of germ-free mice during experimentation

    Authors: Hecht G., Bar-Nathan C., Milite G., Alon I., Moshe Y., Greenfeld L., Dotsenko N., Suez J., Levy M., Thaiss C. A., Dafni H., Elinav E. & Harmelin A. (2014), Laboratory Animals. 48, 4, p. 292-297
  • Genetic and phenotypic diversity in breast tumor metastases

    Authors: Almendro V., Kim H. J., Cheng Y. K., Gonen M., Itzkovitz S., Argani P., Van Oudenaarden A., Sukumar S., Michor F. & Polyak K. (2014), Cancer Research. 74, 5, p. 1338-1348
  • The role of chromatin dynamics in immune cell development

    Authors: Winter D. R. & Amit I. (2014), Immunological Reviews. 261, 1, p. 9-22
  • Inflammasomes and Metabolic Disease

    Authors: Henao-Mejia J., Elinav E., Thaiss C. A. & Flavell R. (2014), Annual Review of Physiology. 76, p. 57-78
  • Reply to Metson et al.: The importance of phosphorus perturbations

    Authors: Eshel G., Shepon A., Makov T. & Milo R. (2014),
  • A fundamental trade-off in covalent switching and its circumvention by enzyme bifunctionality in glucose homeostasis

    Authors: Dasgupta T., Croll D. H., Owen J. A., Van Der Heiden M. G., Locasale J. W., Alon U., Cantley L. C. & Gunawardena J. (2014), Journal of Biological Chemistry. 289, 19, p. 13010-13025
  • 4sUDRB-seq: measuring genomewide transcriptional elongation rates and initiation frequencies within cells

    Authors: Fuchs G., Voichek Y., Benjamin S., Gilad S., Amit I. & Oren M. (2014), GENOME BIOLOGY. 15, 5, p. R69
  • The yeast oligopeptide transporter Opt2 is localized to peroxisomes and affects glutathione redox homeostasis

    Authors: Elbaz-Alon Y., Morgan B., Clancy A., Amoako T. N., Zalckvar E., Dick T. P., Schwappach B. & Schuldiner M. (2014), FEMS Yeast Research. 14, 7, p. 1055-1067
  • KSHV 2.0: A Comprehensive Annotation of the Kaposi's Sarcoma-Associated Herpesvirus Genome Using NextGeneration Sequencing Reveals Novel Genomic and Functional Features

    Authors: Arias C., Weisburd B., Stern-Ginossar N., Mercier A., Madrid A. S., Bellare P., Holdorf M., Weissman J. S. & Ganem D. (2014), PLoS Pathogens. 10, 1, 1003847
  • Scaling of dorsal-ventral patterning in the Xenopus laevis embryo

    Authors: Ben-Zvi D., Fainsod A., Shilo B. Z. & Barkai N. (2014), BioEssays. 36, 2, p. 151-156
  • Probing the effect of promoters on noise in gene expression using thousands of designed sequences

    Authors: Sharon E., Van Dijk D. D., Kalma Y., Keren L., Manor O., Yakhini Z. & Segal E. (2014), Genome Research. 24, 10, p. 1698-1706
  • COMBINATION OF GENE COPY GAIN AND EPIGENETIC DEREGULATION ARE ASSOCIATED WITH THE ABERRANT EXPRESSION OF A STEM CELL RELATED HOX-SIGNATURE IN GLIOBLASTOMA

    Authors: Kurscheid S., Bady P., Sciuscio D., Samarzija I., Shay T., Vassallo I., Van Criekinge C. W., Domany E., Stupp R., Delorenzi M. & Hegi M. (2014),
  • Primers-4-Yeast: A comprehensive web tool for planning primers for Saccharomyces cerevisiae

    Authors: Yofe I. & Schuldiner M. (2014), Yeast. 31, 2, p. 77-80
  • Divergence and selectivity of expression-coupled histone modifications in budding yeasts

    Authors: Mosesson Y., Voichek Y. & Barkai N. (2014), PLoS ONE. 9, 7, e101538
  • A dual program for translation regulation in cellular proliferation and differentiation.

    Authors: Gingold H., Tehler D., Christoffersen N., Nielsen M., Asmar F., Kooistra S., Christophersen N., Christensen L., Borre M., Sorensen K., Andersen L., Andersen C., Hulleman E., Wurdinger T., Ralfkiaer E., Helin K., Gronbaek K., Omtoft T., Waszak S., Dahan O., Pedersen J., Lund A. & Pilpel Y. (2014), Cell. 158, 6, p. 1281-1292
  • Diurnal suppression of EGFR signalling by glucocorticoids and implications for tumour progression and treatment

    Authors: Lauriola M., Enuka Y., Zeisel A., D'Uva G., Roth L., Sharon-Sevilla M., Lindzen M., Sharma K., Nevo N., Carvalho S., Cohen-Dvashi H., Kedmi M., Ben Chetrit C. N., Chen A., Solmi R., Wiemann S., Schmitt F., Domany E. & Yarden Y. (2014), Nature Communications. 5, 5073
  • Point of View: Correcting the bias against interdisciplinary research

    Authors: Shapiro E. (2014), eLife. 3, 3, 02576
  • Digital cell quantification identifies global immune cell dynamics during influenza infection

    Authors: Altboum Z., Steuerman Y., David E., Barnett Itzhaki I. Z., Valadarsky L., Keren-Shaul H., Meningher T., Mendelson E., Mandelboim M., Gat-Viks I. & Amit I. (2014), Molecular Systems Biology. 10, 2, 134947
  • Loss of growth homeostasis by genetic decoupling of cell division from biomass growth: Implication for size control mechanisms

    Authors: Schmidt-Glenewinkel H. & Barkai N. (2014), Molecular Systems Biology. 10, 12, 769
  • Lucky iPSCs

    Authors: Zviran A. & Hanna J. H. (2014), GENOME BIOLOGY. 15, 3, 109
  • Land, irrigation water, greenhouse gas, and reactive nitrogen burdens of meat, eggs, and dairy production in the United States

  • Pemphigus vulgaris is characterized by low IgG reactivities to specific self-antigens along with high IgG reactivity to desmoglein 3

    Authors: Fattal I., Rimer J., Shental N., Molad Y., Gabrielli A., Livneh A., Sarig O., Goldberg I., Gafter U., Domany E. & Cohen I. R. (2014), Immunology. 143, 3, p. 374-380
  • A dynamic interface between vacuoles and mitochondria in yeast

    Authors: Elbaz-Alon Y., Rosenfeld-Gur E., Shinder V., Futerman A. H., Geiger T. & Schuldiner M. (2014), Developmental Cell. 30, 1, p. 95-102
  • Scaling morphogen gradients during tissue growth by a cell division rule

    Authors: Averbukh I., Ben-Zvi D., Mishra S. & Barkai N. (2014), Development. 141, 10, p. 2150-2156
  • A defect in the RNA-processing protein HNRPDL causes limb-girdle muscular dystrophy 1G (LGMD1G)

    Authors: Vieira N. M., Naslavsky M. S., Licinio L., Kok F., Schlesinger D., Vainzof M., Sanchez N., Kitajima J. P., Gal L., Cavacana N., Serafini P. R., Chuartzman S., Vasquez C., Mimbacas A., Nigro V., Pavanello R. C., Schuldiner M., Kunkel L. M. & Zatz M. (2014), Human Molecular Genetics. 23, 15, p. 4103-4110, ddu127
  • Heuristic for Maximizing DNA Reuse in Synthetic DNA Library Assembly

    Authors: Blakes J., Raz O., Feige U., Bacardit J., Widera P., Ben-Yehezkel T., Shapiro E. & Krasnogor N. (2014), ACS Synthetic Biology. 3, 8, p. 529-542
  • Intratumor DNA methylation heterogeneity reflects clonal evolution in aggressive prostate cancer

    Authors: Brocks D., Assenov Y., Minner S., Bogatyrova O., Simon R., Koop C., Oakes C., Zucknick M., Lipka D. B., Weischenfeldt J., Feuerbach L., Lari R. C., Lupien M., Brors B., Korbel J., Schlomm T., Tanay A., Sauter G., Gerhaeuser C. & Plass C. (2014), Cell Reports. 8, 3, p. 798-806
  • Sequestration of a two-component response regulator by a riboswitch-regulated noncoding RNA

    Authors: Mellin J. R., Koutero M., Dar D., Nahori M. A., Sorek R. & Cossart P. (2014), Science. 345, 6199, p. 940-943
  • MiR-661 downregulates both Mdm2 and Mdm4 to activate p53

    Authors: Hoffman Y., Bublik D. R., Pilpel Y. & Oren M. (2014), Cell Death and Differentiation. 21, 2, p. 302-309
  • Location of the unique integration site on an Escherichia coli chromosome by bacteriophage lambda DNA in vivo

    Authors: Tal A., Arbel-Goren R., Costantino N., Court D. L. & Stavans J. (2014), Proceedings of the National Academy of Sciences of the United States of America. 111, 20, p. 7308-7312
  • The quantified cell

    Authors: Flamholz A., Phillips R. & Milo R. (2014), Molecular Biology of the Cell. 25, 22, p. 3497-3500
  • Linear Superposition and Prediction of Bacterial Promoter Activity Dynamics in Complex Conditions

    Authors: Rothschild D., Dekel E., Hausser J., Bren A., Aidelberg G., Szekely P. & Alon U. (2014), PLoS Computational Biology. 10, 5, e1003602
  • A melanoma cell state distinction influences sensitivity to MAPK pathway inhibitors

    Authors: Konieczkowski D. J., Johannessen C. M., Abudayyeh O., Kim J. W., Cooper Z. A., Piris A., Frederick D. T., Barzily-Rokni M., Straussman R., Haq R., Fisher D. E., Mesirov J. P., Hahn W. C., Flaherty K. T., Wargo J. A., Tamayo P. & Garraway L. A. (2014), Cancer Discovery. 4, 7, p. 816-827
  • All roads lead to Rome-SRP independent translocation into the endoplasmic reticulum

    Authors: Ast T. & Schuldiner M. (2014),
  • The grammar of transcriptional regulation

    Authors: Weingarten-Gabbay S. & Segal E. (2014), Human Genetics. 133, 6, p. 701-711
  • Pathway Thermodynamics Highlights Kinetic Obstacles in Central Metabolism

    Authors: Noor E., Bar-Even A., Flamholz A., Reznik E., Liebermeister W. & Milo R. (2014), PLoS Computational Biology. 10, 2, e1003483
  • Paradoxical Signaling by a Secreted Molecule Leads to Homeostasis of Cell Levels

    Authors: Hart Y., Reich-Zeliger S., Antebi Y. E., Zaretsky I., Mayo A. E., Alon U. & Friedman N. (2014), Cell. 158, 5, p. 1022-1032
  • Widespread genetic heterogeneity in multiple myeloma: Implications for targeted therapy

    Authors: Lohr J. G., Stojanov P., Carter S. L., Cruz-Gordillo P., Lawrence M. S., Auclair D., Sougnez C., Knoechel B., Gould J., Saksena G., Cibulskis K., McKenna A., Chapman M. A., Straussman R., Levy J., Perkins L. M., Keats J. J., Schumacher S. E., Rosenberg M., Getz G. & Golub T. R. (2014), Cancer Cell. 25, 1, p. 91-101
  • Expansion of CD16 positive and negative human NK cells in response to tumor stimulation

    Authors: Tsukerman P., Stern-Ginossar N., Yamin R., Ophir Y., Miller A., Stanietsky N. & Mandelboim O. (2014), European Journal of Immunology. 44, 5, p. 1517-1525
  • The fire within: Microbes inflame tumors

    Authors: Gagliani N., Hu B., Huber S., Elinav E. & Flavell R. A. (2014), Cell. 157, 4, p. 776-783
  • Transkingdom control of microbiota diurnal oscillations promotes metabolic homeostasis

    Authors: Thaiss C. A., Zeevi D., Levy M., Zilberman-Schapira G., Suez J., Tengeler A. C., Abramson L., Katz M. N., Korem T., Zmora N., Kuperman Y., Biton I., Gilad S., Harmelin A., Shapiro H., Halpern Z., Segal E. & Elinav E. (2014), Cell. 159, 3, p. 514-529
  • The back and forth of cargo exit from the endoplasmic reticulum

    Authors: Geva Y. & Schuldiner M. (2014), Current Biology. 24, 3, p. R130-R136
  • Yeast phospholipid biosynthesis is linked to mRNA localization

    Authors: Hermesh O., Genz C., Yofe I., Sinzel M., Rapaport D., Schuldiner M. & Jansen R. (2014), Journal of Cell Science. 127, 15, p. 3373-3381
  • Inference of tumor evolution during chemotherapy by computational modeling and in situ analysis of genetic and phenotypic cellular diversity

    Authors: Almendro V., Cheng Y. K., Randles A., Itzkovitz S., Marusyk A., Ametller E., Gonzalez-Farre X., Muñoz M., Russnes H. G., Helland Å., Rye I. H., Borresen-Dale A. L., Maruyama R., vanOudenaarden A., Dowsett M., Jones R. L., Reis-Filho J., Gascon P., Gönen M., Michor F. & Polyak K. (2014), Cell Reports. 6, 3, p. 514-527
  • A cytosolic degradation pathway, prERAD, monitors pre-inserted secretory pathway proteins

    Authors: Ast T., Aviram N., Chuartzman S. G. & Schuldiner M. (2014), Journal of Cell Science. 127, 14, p. 3017-3023
  • Different subunits belonging to the same protein complex often exhibit discordant expression levels and evolutionary properties

    Authors: Matalon O., Horovitz A. & Levy E. D. (2014), Current Opinion in Structural Biology. 26, 1, p. 113-120
  • Passage number is a major contributor to genomic structural variations in mouse iPSCs

    Authors: Liu P., Kaplan A., Yuan B., Hanna J. H., Lupski J. R. & Reiner O. (2014), Stem Cells. 32, 10, p. 2657-2667
  • Sequential feedback induction stabilizes the phosphate starvation response in budding yeast

    Authors: Vardi N., Levy S., Gurvich Y., Polacheck T., Carmi M., Jaitin D., Amit I. & Barkai N. (2014), Cell Reports. 9, 3, p. 1122-1134
  • Molecular dissection of the genetic mechanisms that underlie expression conservation in orthologous yeast ribosomal promoters

    Authors: Zeevi D., Lubliner S., Lotan-Pompan M., Hodis E., Vesterman R., Weinberger A. & Segal E. (2014), Genome Research. 24, 12, p. 1991-1999
  • Hierarchy of non-glucose sugars in Escherichia coli

    Authors: Aidelberg G., Towbin B. D., Rothschild D., Dekel E., Bren A. & Alon U. (2014), BMC Systems Biology. 8, 1, A2206
  • High-resolution metagenomics

    Authors: Mick E. & Sorek R. (2014),
  • The cross talk between microbiota and the immune system: Metabolites take center stage

    Authors: Shapiro H., Thaiss C. A., Levy M. & Elinav E. (2014), Current Opinion in Immunology. 30, 1, p. 54-62
  • Accurate, Model-Based Tuning of Synthetic Gene Expression Using Introns in S. cerevisiae

    Authors: Yofe I., Zafrir Z., Blau R., Schuldiner M., Tuller T., Shapiro E. & Ben-Yehezkel T. (2014), PLoS Genetics. 10, 6, e1004407
  • Transcriptome-wide mapping reveals widespread dynamic-regulated pseudouridylation of ncRNA and mRNA

    Authors: Schwartz S., Bernstein D. A., Mumbach M. R., Jovanovic M., Herbst R. H., Leon-Ricardo B. X., Engreitz J. M., Guttman M., Satija R., Lander E. S., Fink G. & Regev A. (2014), Cell. 159, 1, p. 148-162
  • Checkpoint-independent scaling of the Saccharomyces cerevisiae DNA replication program

    Authors: Gispan A., Carmi M. & Barkai N. (2014), BMC Medicine. 12, 1, 79
  • Single-cell RNA-seq reveals dynamic paracrine control of cellular variation

    Authors: Shalek A. K., Satija R., Shuga J., Trombetta J. J., Gennert D., Lu D., Chen P., Gertner R. S., Gaublomme J. T., Yosef N., Schwartz S., Fowler B., Weaver S., Wang J., Wang X., Ding R., Raychowdhury R., Friedman N., Hacohen N., Park H., May A. P. & Regev A. (2014), Nature. 510, 7505, p. 363-369
  • OM14 is a mitochondrial receptor for cytosolic ribosomes that supports co-translational import into mitochondria

    Authors: Lesnik C., Cohen Y., Atir-Lande A., Schuldiner M. & Arava Y. (2014), Nature Communications. 5, 5711
  • The central nervous system microenvironment imprints microglial inability to switch from pro- to anti-inflammatory phenotype

    Authors: Matcovitch O., Cohen M., David E., Barnettitzhaki Z., Keren-Shaul H., Blecher-gonen R., Jaitin D. A., Sica A., Amit I. & Schwartz M. (2014),
  • Systematic identification of cell size regulators in budding yeast

    Authors: Soifer I. & Barkai N. (2014), Molecular Systems Biology. 10, 11, 761
  • The PH gene determines fruit acidity and contributes to the evolution of sweet melons

    Authors: Cohen S., Itkin M., Yeselson Y., Tzuri G., Portnoy V., Harel-Baja R., Lev S., Sa'ar U., Davidovitz-Rikanati R., Baranes N., Bar E., Wolf D., Petreikov M., Shen S., Ben-Dor S., Rogachev I., Aharoni A., Ast T., Schuldiner M., Belausov E., Eshed R., Ophir R., Sherman A., Frei B., Neuhaus H. E., Xu Y., Fei Z., Giovannoni J., Lewinsohn E., Tadmor Y., Paris H. S., Katzir N., Burger Y. & Schaffer A. A. (2014), Nature Communications. 5, 4026
  • mRNA-programmed translation pauses in the targeting of E. coli membrane proteins

    Authors: Fluman N., Navon S., Bibi E. & Pilpel Y. (2014), eLife. 3, August2014, p. 1-19, 03440
  • Microarray discovery of new OGT substrates: The medulloblastoma oncogene OTX2 is O -GlcNAcylated

    Authors: Ortiz-Meoz R. F., Merbl Y., Kirschner M. W. & Walker S. (2014), Journal of the American Chemical Society. 136, 13, p. 4845-4848
  • Ribosome Profiling Reveals Pervasive Translation Outside of Annotated Protein-Coding Genes

    Authors: Ingolia N. T., Brar G. A., Stern-Ginossar N., Harris M. S., Talhouarne G. J. S., Jackson S. E., Wills M. R. & Weissman J. S. (2014), Cell Reports. 8, 5, p. 1365-1379
  • Novel superactive leptin antagonists and their potential therapeutic applications

    Authors: Gertler A. & Elinav E. (2014), Current Pharmaceutical Design. 20, 4, p. 659-665
  • High-Resolution Mapping of Protein Concentration Reveals Principles of Proteome Architecture and Adaptation

    Authors: Levy E. D., Kowarzyk J. & Michnick S. W. (2014), Cell Reports. 7, 4, p. 1333-1340
  • Chronic exposure to TGFβ1 regulates myeloid cell inflammatory response in an IRF7-dependent manner

    Authors: Cohen M., Matcovitch O., David E., Barnett Itzhaki I. Z., Keren-Shaul H., Blecher-Gonen R., Jaitin D. A., Sica A., Amit I. & Schwartz M. (2014), EMBO Journal. 33, 24, p. 2906-2921
  • Dynamic and static maintenance of epigenetic memory in pluripotent and somatic cells.

    Authors: Shipony Z., Mukamel Z., Cohen N. M., Landan G., Chomsky E., Zeliger S. R., Fried Y. C., Ainbinder E., Friedman N. & Tanay A. (2014), Nature. 513, 7516, p. 115-119
  • Coordination of gene expression and growth-rate in natural populations of budding yeast

    Authors: Tamari Z., Rosin D., Voichek Y. & Barkai N. (2014), PLoS ONE. 9, 2, e88801
  • Individuality and togetherness in joint improvised motion

    Authors: Hart Y., Noy L., Feniger-Schaal R., Mayo A. & Alon U. (2014), PLoS ONE. 9, 2, e87213
  • Analysis of the transcriptional networks underpinning the activation of murine macrophages by inflammatory mediators

    Authors: Raza S., Barnett M. W., Barnett Itzhaki I. Z., Amit I., Hume D. A. & Freeman T. C. (2014), Journal of Leukocyte Biology. 96, 2, p. 167-183
  • Lineage grammars: Describing, simulating and analyzing population dynamics

    Authors: Spiro A., Cardelli L. & Shapiro E. (2014), BMC Bioinformatics. 15, 1, 249
  • NLRP6 inflammasome orchestrates the colonic host-microbial interface by regulating goblet cell mucus secretion

    Authors: Wlodarska M., Thaiss C. A., Nowarski R., Henao-Mejia J., Zhang J. P., Brown E. M., Frankel G., Levy M., Katz M. N., Philbrick W. M., Elinav E., Finlay B. B. & Flavell R. A. (2014), Cell. 156, 5, p. 1045-1059
  • MicroRNAs and Alu elements in the p53-Mdm2-Mdm4 regulatory network

    Authors: Hoffman Y., Pilpel Y. & Oren M. (2014), Journal of Molecular Cell Biology. 6, 3, p. 192-197
  • Aging-induced type I interferon response at the choroid plexus negatively affects brain function

    Authors: Baruch K., Deczkowska A., David E., Castellano J. M., Miller O., Kertser A., Berkutzki T., Barnett Itzhaki I. Z., Bezalel D., Wyss-Coray T., Amit I. & Schwartz M. (2014), Science. 346, 6205, p. 89-93
  • The Biggest Challenges Facing Young Scientists

    Authors: Keays D., Barreiro L., Stuart-Fox D., Brar G., Schuldiner M. & Tahiliani M. (2014), Cell. 157, 4, p. 763-764
  • Cooperativity, specificity, and evolutionary stability of polycomb targeting in Drosophila

    Authors: Schuettengruber B., Elkayam N. O., Sexton T., Entrevan M., Stern S., Thomas A., Yaffe E., Parrinello H., Tanay A. & Cavalli G. (2014), Cell Reports. 9, 1, p. 219-233
  • Noise Genetics: Inferring Protein Function by Correlating Phenotype with Protein Levels and Localization in Individual Human Cells

    Authors: Farkash-Amar S., Zimmer A., Eden E., Cohen A., Geva Zatorsky Z. N., Cohen L., Milo R., Sigal A., Danon T. & Alon U. (2014), PLoS Genetics. 10, 3, e1004176
  • A Negative Feedback Loop of Transcription Factors Specifies Alternative Dendritic Cell Chromatin States

    Authors: Bornstein C., Winter D., Barnett Itzhaki I. Z., David E., Kadri S., Garber M. & Amit I. (2014), Molecular Cell. 56, 6, p. 749-762
  • Using high-throughput transcriptomic data for prognosis: A critical overview and perspectives

    Authors: Domany E. (2014), Cancer Research. 74, 17, p. 4612-4621
  • The Yeast ER-Intramembrane Protease Ypf1 Refines Nutrient Sensing by Regulating Transporter Abundance

    Authors: Avci D., Fuchs S., Schrul B., Fukumori A., Breker M., Frumkin I., Chen C. Y., Biniossek M. L., Kremmer E., Schilling O., Steiner H., Schuldiner M. & Lemberg M. K. (2014), Molecular Cell. 56, 5, p. 630-640
  • Fast and Accurate Discovery of Degenerate Linear Motifs in Protein Sequences

    Authors: Kelil A., Dubreuil B., Levy E. D. & Michnick S. W. (2014), PLoS ONE. 9, 9, e106081
  • Exploring new horizons in microbiome research

    Authors: Thaiss C. A. & Elinav E. (2014), Cell Host & Microbe. 15, 6, p. 662-667
  • Logarithmic and Power Law Input-Output Relations in Sensory Systems with Fold-Change Detection

    Authors: Adler M., Mayo A. & Alon U. (2014), PLoS Computational Biology. 10, 8, e1003781
  • High-resolution sequencing and modeling identifies distinct dynamic RNA regulatory strategies

    Authors: Rabani M., Raychowdhury R., Jovanovic M., Rooney M., Stumpo D. J., Pauli A., Hacohen N., Schier A. F., Blackshear P. J., Friedman N., Amit I. & Regev A. (2014), Cell. 159, 7, p. 1698-1710
  • Manipulation of host pathways by human cytomegalovirus: Insights from genome-wide studies

    Authors: Cohen Y. & Stern-Ginossar N. (2014), Seminars in Immunopathology. 36, 6, p. 651-658
  • Blastocyst implantation failure relates to impaired translational machinery gene expression

    Authors: Plaks V., Gershon E., Zeisel A., Jacob-Hirsch J., Neeman M., Winterhager E., Rechavi G., Domany E. & Dekel N. (2014), Reproduction. 148, 1, p. 87-98
  • Stem cells: The quest for the perfect reprogrammed cell

    Authors: Krupalnik V. & Hanna J. H. (2014),
  • LoQAtE-Localization and Quantitation ATlas of the yeast proteomE: A new tool for multiparametric dissection of single-protein behavior in response to biological perturbations in yeast

    Authors: Breker M., Gymrek M., Moldavski O. & Schuldiner M. (2014), Nucleic Acids Research. 42, D1, p. D726-D730
  • Landscape and variation of RNA secondary structure across the human transcriptome

    Authors: Wan Y., Qu K., Zhang Q. C., Flynn R. A., Manor O., Ouyang Z., Zhang J., Spitale R. C., Snyder M. P., Segal E. & Chang H. Y. (2014), Nature. 505, 7485, p. 706-709
  • Subcellular transcriptomics-Dissection of the mRNA composition in the axonal compartment of sensory neurons

    Authors: Minis A., Dahary D., Manor O., Leshkowitz D., Pilpel Y. & Yaron A. (2014), Developmental Neurobiology. 74, 3, p. 365-381
  • Post-translational modification profiling-A high-content assay for identifying protein modifications in mammalian cellular systems

    Authors: Merbl Y. & Kirschner M. W. (2014), Current Protocols in Protein Science. 77, 1, p. 27.8.1-27.8.13
  • Chromatin state dynamics during blood formation

    Authors: Lara Astiaso A. D., Weiner A., Lorenzo Vivas V. E., Zaretsky I., Jaitin D. A., David E., Keren-Shaul H., Mildner A., Winter D., Jung S., Friedman N. & Amit I. (2014), Science. 345, 6199, p. 943-949
  • Tissue-resident macrophage enhancer landscapes are shaped by the local microenvironment

    Authors: Lavin Y., Winter D., Blecher-Gonen R., David E., Keren-Shaul H., Merad M., Jung S. & Amit I. (2014), Cell. 159, 6, p. 1312-1326
  • Inflammation-induced cancer: Crosstalk between tumours, immune cells and microorganisms

    Authors: Elinav E., Nowarski R., Thaiss C. A., Hu B., Jin C. & Flavell R. A. (2013), Nature Reviews Cancer. 13, 11, p. 759-771
  • Formation and dissociation of proteasome storage granules are regulated by cytosolic pH

    Authors: Peters Lee Zeev Z., Hazan R., Breker M., Schuldiner M. & Ben-Aroya S. (2013), Journal of Cell Biology. 201, 5, p. 663-671
  • Determinants of nucleosome positioning

    Authors: Struhl K. & Segal E. (2013), Nature Structural & Molecular Biology. 20, 3, p. 267-273
  • Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

    Authors: Shalek A. K., Satija R., Adiconis X., Gertner R. S., Gaublomme J. T., Raychowdhury R., Schwartz S., Yosef N., Malboeuf C., Lu D., Trombetta J. J., Gennert D., Gnirke A., Goren A., Hacohen N., Levin J. Z., Park H. & Regev A. (2013), Nature. 498, 7453, p. 236-240
  • What is the total number of protein molecules per cell volume? A call to rethink some published values

    Authors: Milo R. (2013), BioEssays. 35, 12, p. 1050-1055
  • CRISPR-Mediated Adaptive Immune Systems in Bacteria and Archaea

    Authors: Sorek R., Lawrence C. M. & Wiedenheft B. (2013), Annual Review of Biochemistry. 82, p. 237-266
  • Microbiota-induced activation of epithelial IL-6 signaling links inflammasome-driven inflammation

    Authors: Hu B., Elinav E., Huber S., Strowig T., Hao L., Hafemann A., Jin C., Eisenbarth S. C. & Flavell R. A. (2013), Proceedings of the National Academy of Sciences of the United States of America. 110, 24, p. 9862-9867
  • High-throughput chromatin immunoprecipitation for genome-wide mapping of in vivo protein-DNA interactions and epigenomic states

    Authors: Blecher-Gonen R., Barnett Itzhaki Z., Jaitin D., Amann Zalcenstein D., Lara Astiaso D. & Amit I. (2013), Nature protocols. 8, 3, p. 539-554
  • Extracting Insight from Noisy Cellular Networks

    Authors: Landry C. R., Levy E. D., Abd Rabbo D., Tarassov K. & Michnick S. W. (2013), Cell. 155, 5, p. 983-989
  • From rags to riches - The history of the endoplasmic reticulum

  • Mapping the translation initiation landscape of an S. cerevisiae gene using fluorescent proteins

    Authors: Ben-Yehezkel T., Zur H., Marx T., Shapiro E. & Tuller T. (2013), Genomics. 102, 4, p. 419-429
  • A network of cytosolic factors targets SRP-independent proteins to the endoplasmic reticulum

    Authors: Ast T., Cohen G. & Schuldiner M. (2013), Cell. 152, 5, p. 1134-1145
  • Single-molecule mRNA detection and counting in mammalian tissue

    Authors: Lyubimova A., Itzkovitz S., Junker J. P., Fan Z. P., Wu X. & van Oudenaarden O. A. (2013), Nature Protocols. 8, 9, p. 1743-1758
  • Promoter Sequence Determines the Relationship between Expression Level and Noise

    Authors: Carey L. B., van Dijk D., Sloot P. M., Kaandorp J. A. & Segal E. (2013), PLoS Biology. 11, 4, e1001528
  • Role of the intestinal microbiome in liver disease

    Authors: Henao-Mejia J., Elinav E., Thaiss C. A., Licona-Limon P. & Flavell R. A. (2013), Journal of Autoimmunity. 46, p. 66-73
  • Get3 is a holdase chaperone and moves to deposition sites for aggregated proteins when membrane targeting is blocked

    Authors: Powis K., Schrul B., Tienson H., Gostimskaya I., Breker M., High S., Schuldiner M., Jakob U. & Schwappach B. (2013), Journal of Cell Science. 126, 2, p. 473-483
  • All roads lead to Rome (but some may be harder to travel): SRP-independent translocation into the endoplasmic reticulum

  • c-Kit is suppressed in human colon cancer tissue and contributes to L1-mediated metastasis

    Authors: Gavert N., Shvab A., Sheffer M., Ben Shmuel S. A., Haase G., Bakos E., Domany E. & Ben-Ze'ev A. (2013), Cancer Research. 73, 18, p. 5754-5763
  • QCMA: A desktop application for quantitative collective cell migration analysis

    Authors: Zeisel A., Yitzhaky A., Koerner C., Lauriola M., Cohen-Dvashi H., Koestler W. J., Yarden Y., Wiemann S. & Domany E. (2013), Journal of Biomolecular Screening. 18, 3, p. 356-360
  • Creating gradients by morphogen shuttling

    Authors: Shilo B. Z., Haskel-Ittah M., Ben-Zvi D., Schejter E. D. & Barkai N. (2013), Trends in Genetics. 29, 6, p. 339-347
  • Profiling of ubiquitin-like modifications reveals features of mitotic control

    Authors: Merbl Y., Refour P., Patel H., Springer M. & Kirschner M. W. (2013), Cell. 152, 5, p. 1160-1172
  • Response to Comment on "Evolutionary Trade-Offs, Pareto Optimality, and the Geometry of Phenotype Space"

    Authors: Shoval O., Sheftel H., Shinar G., Hart Y., Ramote O., Mayo A., Dekel E., Kavanagh K. & Alon U. (2013), Science. 339, 6121
  • Chromosomal domains: Epigenetic contexts and functional implications of genomic compartmentalization

    Authors: Tanay A. & Cavalli G. (2013), Current opinion in genetics & development. 23, 2, p. 197-203
  • Two DNA-encoded strategies for increasing expression with opposing effects on promoter dynamics and transcriptional noise

    Authors: Dadiani M., Van Dijk D. D., Segal B., Field Y., Ben Artzi A. G., Raveh - Sadka -. S. T., Levo M., Kaplow I., Weinberger A. & Segal E. (2013), Genome Research. 23, 6, p. 966-976
  • Drosophila Functional Elements Are Embedded in Structurally Constrained Sequences

    Authors: Kenigsberg E. & Tanay A. (2013), PLoS Genetics. 9, 5, e1003512
  • Comparing Algorithms That Reconstruct Cell Lineage Trees Utilizing Information on Microsatellite Mutations

    Authors: Chapal Ilani I. N., Maruvka Y. E., Spiro A., Reizel Y., Adar R., Shlush L. I. & Shapiro E. (2013), PLoS Computational Biology. 9, 11, 1003297
  • Hypomethylation marks enhancers within transposable elements

    Authors: Mukamel Z. & Tanay A. (2013), Nature Genetics. 45, 7, p. 717-718
  • Epidermal growth-factor - Induced transcript isoform variation drives mammary cell migration

    Authors: Koestler W. J., Zeisel A., Koerner C., Tsai J. M., Jacob-Hirsch J., Ben Chetrit C. N., Sharma K., Cohen-Dvashi H., Yitzhaky A., Lader E., Tschulena U., Rechavi G., Domany E., Wiemann S. & Yarden Y. (2013), PLoS ONE. 8, 12, e80566
  • Temperature Integration: An efficient procedure for calculation of free energy differences

    Authors: Farhi A., Hed G., Bon M., Caticha N., Mak C. H. & Domany E. (2013), Physica A-Statistical Mechanics And Its Applications. 392, 23, p. 5836-5844
  • Characterization of an M28 metalloprotease family member residing in the yeast vacuole

    Authors: Hecht K. A., Wytiaz V. A., Ast T., Schuldiner M. & Brodsky J. L. (2013), FEMS Yeast Research. 13, 5, p. 471-484
  • Developmental biology: Segmentation within scale

    Authors: Barkai N. & Shilo B. Z. (2013),
  • Measurements of the Impact of 3′ End Sequences on Gene Expression Reveal Wide Range and Sequence Dependent Effects

    Authors: Shalem O., Carey L., Zeevi D., Sharon E., Keren L., Weinberger A., Dahan O., Pilpel Y. & Segal E. (2013), PLoS Computational Biology. 9, 3, e1002934
  • A library of programmable DNAzymes that operate in a cellular environment

    Authors: Kahan-Hanum M., Douek Y., Adar R. & Shapiro E. (2013), Scientific Reports. 3, 1535
  • Derivation of novel human ground state naive pluripotent stem cells

    Authors: Gafni O., Weinberger L., Mansour A. A., Manor Y. S., Chomsky E., Ben-Yosef D., Kalma Y., Viukov S., Maza I., Zviran A., Rais Y., Shipony Z., Mukamel Z., Krupalnik V., Zerbib M., Geula S., Caspi I., Schneir D., Shwartz T., Gilad S., Amann Zalcenstein D., Benjamin S., Amit I., Tanay A., Massarwa R., Novershtern N. & Hanna J. (. (2013), Nature. 504, 7479, p. 282-286
  • Mononuclear phagocyte miRNome analysis identifies miR-142 as critical regulator of murine dendritic cell homeostasis

    Authors: Mildner A., Chapnik E., Manor O., Yona S., Kim K., Aychek T., Varol D., Beck G., Itzhaki Z. B., Feldmesser E., Amit I., Hornstein E. & Jung S. (2013), Blood. 121, 6, p. 1016-1027
  • Promoters maintain their relative activity levels under different growth conditions

    Authors: Keren L., Zackay O., Lotan-Pompan M., Barenholz U., Dekel E., Sasson V., Aidelberg G., Bren A., Zeevi D., Weinberger A., Alon U., Milo R. & Segal E. (2013), Molecular Systems Biology. 9, 701
  • Nucleosome maps of the human cytomegalovirus genome reveal a temporal switch in chromatin organization linked to a major IE protein

    Authors: Zalckvar E., Paulus C., Tillo D., Asbach-Nitzsche A., Lubling Y., Winterling C., Strieder N., Mücke K., Goodrum F., Segal E. & Nevels M. (2013), Proceedings of the National Academy of Sciences of the United States of America. 110, 32, p. 13126-13131
  • Discovery of Functional Toxin/Antitoxin Systems in Bacteria by Shotgun Cloning

    Authors: Sberro H., Leavitt A., Kiro R., Koh E., Peleg Y., Qimron U. & Sorek R. (2013), Molecular Cell. 50, 1, p. 136-148
  • Quantifying translational coupling in E. coli synthetic operons using RBS modulation and fluorescent reporters

    Authors: Levin Karp K. A., Barenholz U., Bareia T., Dayagi M., Zelcbuch L., Antonovsky N., Noor E. & Milo R. (2013), ACS Synthetic Biology. 2, 6, p. 327-336
  • Design and analysis of metabolic pathways supporting formatotrophic growth for electricity-dependent cultivation of microbes

    Authors: Bar-Even A., Noor E., Flamholz A. & Milo R. (2013), Biochimica Et Biophysica Acta-Bioenergetics. 1827, 9-Aug, p. 1039-1047
  • Steady-State Metabolite Concentrations Reflect a Balance between Maximizing Enzyme Efficiency and Minimizing Total Metabolite Load

    Authors: Tepper N., Noor E., Amador-Noguez D., Haraldsdottir H. S., Milo R., Rabinowitz J., Liebermeister W. & Shlomi T. (2013), PLoS ONE. 8, 9, e75370
  • Single-cell sequencing-based technologies will revolutionize whole-organism science

    Authors: Shapiro E., Biezuner T. & Linnarsson S. (2013), Nature Reviews Genetics. 14, 9, p. 618-630
  • Spanning high-dimensional expression space using ribosome-binding site combinatorics

    Authors: Zelcbuch L., Antonovsky N., Bar-Even A., Levin Karp A., Barenholz U., Dayagi M., Liebermeister W., Flamholz A., Noor E., Amram S., Brandis A., Bareia T., Yofe I., Jubran H. & Milo R. (2013), Nucleic Acids Research. 41, 9, p. e98
  • High-resolution mapping reveals a conserved, widespread, dynamic mRNA methylation program in yeast meiosis

    Authors: Schwartz S., Agarwala S. D., Mumbach M. R., Jovanovic M., Mertins P., Shishkin A., Tabach Y., Mikkelsen T. S., Satija R., Ruvkun G., Carr S. A., Lander E. S., Fink G. R. & Regev A. (2013), Cell. 155, 6, p. X1409-1421
  • A novel single-cell screening platform reveals proteome plasticity during yeast stress responses

    Authors: Breker M., Gymrek M. & Schuldiner M. (2013), Journal of Cell Biology. 200, 6, p. 839-850
  • Trna genes rapidly change in evolution to meet novel translational demands

    Authors: Yona A. H., Bloom-Ackermann Z., Frumkin I., Hanson-Smith V., Charpak-Amikam Y., Feng Q., Boeke J. D., Dahan O. & Pilpel Y. (2013), eLife. 2013, 2, e01339
  • A Global Transcriptional Switch between the Attack and Growth Forms of Bdellovibrio bacteriovorus

    Authors: Karunker I., Rotem O., Dori-Bachash M., Jurkevitch E. & Sorek R. (2013), PLoS ONE. 8, 4, e61850
  • The yeast P5 type ATPase, Spf1, regulates manganese transport into the endoplasmic reticulum

    Authors: Cohen Y., Megyeri M., Chen O. C. W., Condomitti G., Riezman I., Loizides-Mangold U., Abdul-Sada A., Rimon N., Riezman H., Platt F. M., Futerman A. H. & Schuldiner M. (2013), PLoS ONE. 8, 12, e85519
  • A versatile genome-scale PCR-based pipeline for high-definition DNA FISH

    Authors: Bienko M., Crosetto N., Teytelman L., Klemm S., Itzkovitz S. & Van Oudenaarden A. (2013), Nature Methods. 10, 2, p. 122-124
  • EcoTime - An intuitive quantitative sustainability indicator utilizing a time metric

    Authors: Shepon A., Israeli T., Eshel G. & Milo R. (2013), Ecological Indicators. 24, p. 240-245
  • Computational evaluation of cellular metabolic costssuccessfully predicts genes whose expression is deleterious

    Authors: Wagner A., Zarecki R., Reshef L., Gochev C., Sorek R., Gophna U. & Ruppin E. (2013), Proceedings of the National Academy of Sciences of the United States of America. 110, 47, p. 19166-19171
  • Robust Prediction of Expression Differences among Human Individuals Using Only Genotype Information

    Authors: Manor O. & Segal E. (2013), PLoS Genetics. 9, 3, e1003396
  • Oct4 shuffles Sox partners to direct cell fate

    Authors: Mansour A. A. & Hanna J. H. (2013), EMBO Journal. 32, 7, p. 917-919
  • Predicting Disease Risk Using Bootstrap Ranking and Classification Algorithms

    Authors: Manor O. & Segal E. (2013), PLoS Computational Biology. 9, 8, e1003200
  • The Expression of the Beta Cell-Derived Autoimmune Ligand for the Killer Receptor Nkp46 Is Attenuated in Type 2 Diabetes

    Authors: Gur C., Enk J., Weitman E., Bachar E., Suissa Y., Cohen G., Schyr R. B., Sabanay H., Horwitz E., Glaser B., Dor Y., Pribluda A., Hanna J. H., Leibowitz G. & Mandelboim O. (2013), PLoS ONE. 8, 8, e74033
  • Single-cell Hi-C reveals cell-to-cell variability in chromosome structure

    Authors: Nagano T., Lubling Y., Stevens T. J., Schoenfelder S., Yaffe E., Dean W., Laue E. D., Tanay A. & Fraser P. (2013), Nature. 502, 7469, p. 59-64
  • The contribution of systematic approaches to characterizing the proteins and functions of the endoplasmic reticulum

    Authors: Schuldiner M. & Weissman J. S. (2013), Cold Spring Harbor perspectives in biology. 5, 3
  • Comparing Apples and Oranges: Fold-Change Detection of Multiple Simultaneous Inputs

    Authors: Hart Y., Mayo A. E., Shoval O. & Alon U. (2013), PLoS ONE. 8, 3, e57455
  • Expression of TP53 mutation-associated microRNAs predicts clinical outcome in head and neck squamous cell carcinoma patients

    Authors: Ganci F., Sacconi A., Ben-Moshe N. B., Manciocco V., Sperduti I., Strigari L., Covello R., Benevolo M., Pescarmona E., Domany E., Muti P., Strano S., Spriano G., Fontemaggi G. & Blandino G. (2013), Annals of Oncology. 24, 12, p. 3082-3088
  • DNA computing Molecules reach consensus: Molecules reach consensus

    Authors: Shapiro E. & Ran T. (2013),
  • Deciphering the rules by which 5'-UTR sequences affect protein expression in yeast

    Authors: Dvir S., Velten L., Sharon E., Zeevi D., Carey L. B., Weinberger A. & Segal E. (2013), Proceedings of the National Academy of Sciences of the United States of America. 110, 30, p. E2792-E2801
  • The role of Djp1 in import of the mitochondrial protein mim1 demonstrates specificity between a cochaperone and its substrate protein

    Authors: Papic D., Elbaz-Alon Y., Koerdt S. N., Leopold K., Worm D., Jung M., Schuldiner M. & Rapaport D. (2013), Molecular and Cellular Biology. 33, 20, p. 4083-4094
  • Deciphering molecular circuits from genetic variation underlying transcriptional responsiveness to stimuli

    Authors: Gat-Viks I., Chevrier N., Wilentzik R., Eisenhaure T., Raychowdhury R., Steuerman Y., Shalek A. K., Hacohen N., Amit I. & Regev A. (2013), Nature biotechnology. 31, 4, p. 342-349
  • A new algorithm for combinatorial dna library assembly

    Authors: Blakes J., Raz O., Krasnogor N. & Shapiro E. (2013), 5th International Workshop on Bio-Design Automation (IWBDA 2013).
  • Harnessing nanomedicine for mucosal theranostics -A silver bullet at last?

    Authors: Elinav E. & Peer D. (2013), ACS Nano. 7, 4, p. 2883-2890
  • An accessible database for mouse and human whole transcriptome qPCR primers

    Authors: Zeisel A., Yitzhaky A., Ben-Moshe N. B. & Domany E. (2013), Bioinformatics. 29, 10, p. 1355-1356
  • XLincRNAs: Genomics, evolution, and mechanisms

    Authors: Ulitsky I. & Bartel D. P. (2013), Cell. 154, 1, p. 26
  • Differential translation tunes uneven production of operon-encoded proteins

    Authors: Quax T. E. F., Wolf Y. I., Koehorst J. J., Wurtzel O., van der Oost d. O. R., Ran W., Blombach F., Makarova K. S., Brouns S. J. J., Forster A. C., Wagner E. G. H., Sorek R., Koonin E. V. & van der Oost d. O. J. (2013), Cell Reports. 4, 5, p. 938-944
  • Pathway-based personalized analysis of cancer

  • Increasing population growth by asymmetric segregation of a limiting resource during cell division

    Authors: Avraham N., Soifer I., Carmi M. & Barkai N. (2013), Molecular Systems Biology. 9, 656
  • The last generation of bacterial growth in limiting nutrient

    Authors: Bren A., Hart Y., Dekel E., Koster D. & Alon U. (2013), BMC Systems Biology. 7, 27
  • Holding a grudge: Persisting anti-phage CRISPR immunity in multiple human gut microbiomes

    Authors: Mick E., Stern A. & Sorek R. (2013),
  • A synthetic biology approach for evaluating the functional contribution of designer cellulosome components to deconstruction of cellulosic substrates

    Authors: Vazana Y., Barak Y., Unger T., Peleg Y., Shamshoum M., Ben-Yehezkel T., Mazor Y., Shapiro E., Lamed R. & Bayer E. (2013), Biotechnology for Biofuels. 6, 1, 182
  • Cohesin-mediated interactions organize chromosomal domain architecture

    Authors: Sofueva S., Yaffe E., Chan W. C., Georgopoulou D., Vietri Rudan M., Mira-Bontenbal H., Pollard S. M., Schroth G. P., Tanay A. & Hadjur S. (2013), EMBO Journal. 32, 24, p. 3119-3129
  • Glycolytic strategy as a tradeoff between energy yield and protein cost

    Authors: Flamholz A., Noor E., Bar-Even A., Liebermeister W. & Milo R. (2013), Proceedings of the National Academy of Sciences of the United States of America. 110, 24, p. 10039-10044
  • Entrainment of noise-induced and limit cycle oscillators under weak noise

    Authors: Mitarai N., Alon U. & Jensen M. H. (2013), Chaos. 23, 2, 023125
  • CRISPR-Mediated Modular RNA-Guided Regulation of Transcription in Eukaryotes

    Authors: Gilbert L. A., Larson M. H., Morsut L., Liu Z., Brar G. A., Torres S. E., Stern-Ginossar N., Brandman O., Whitehead E. H., Doudna J. A., Lim W. A., Weissman J. S. & Qi L. S. (2013), Cell. 154, 2, p. 442-451
  • Fixated on fixation: using ChIP to interrogate the dynamics of chromatin interactions

    Authors: Keren L. & Segal E. (2013), GENOME BIOLOGY. 14, 11
  • Correlated Occurrence and Bypass of Frame-Shifting Insertion-Deletions (InDels) to Give Functional Proteins

    Authors: Rockah-Shmuel L., Toth-Petroczy A., Sela A., Wurtzel O., Sorek R. & Tawfik D. (2013), PLoS Genetics. 9, 10, e1003882
  • Individual and meta-immune networks

    Authors: Bransburg-Zabary S., Kenett D. Y., Dar G., Madi A., Merbl Y., Quintana F. J., Tauber A. I., Cohen I. R. & Ben-Jacob E. (2013), Physical Biology. 10, 2, 025003
  • The locus of microRNA-10b: A critical target for breast cancer insurgence and dissemination

    Authors: Biagioni F., Ben-Moshe N. B., Fontemaggi G., Yarden Y., Domany E. & Blandino G. (2013), Cell Cycle. 12, 15, p. 2371-2375
  • The excludon: a new concept in bacterial antisense RNA-mediated gene regulation

    Authors: Sesto N., Wurtzel O., Archambaud C., Sorek R. & Cossart P. (2013), Nature Reviews Microbiology. 11, 2, p. 75-82
  • Sequence features of yeast and human core promoters that are predictive of maximal promoter activity

    Authors: Lubliner S., Keren L. & Segal E. (2013), Nucleic Acids Research. 41, 11, p. 5569-5581
  • Evolutionary Tradeoffs between Economy and Effectiveness in Biological Homeostasis Systems

    Authors: Szekely P., Sheftel H., Mayo A. & Alon U. (2013), PLoS Computational Biology. 9, 8, e1003163
  • The majority of endogenous microRNA targets within Alu elements avoid the microRNA machinery

    Authors: Hoffman Y., Dahary D., Bublik D. R., Oren M. & Pilpel Y. (2013), Bioinformatics. 29, 7, p. 894-902
  • Effects of post-transcriptional regulation on phenotypic noise in Escherichia coli

    Authors: Arbel-Goren R., Tal A., Friedlander T., Meshner S., Costantino N., Court D. L. & Stavans J. (2013), Nucleic Acids Research. 41, 9, p. 4825-4834
  • Deterministic direct reprogramming of somatic cells to pluripotency

    Authors: Rais Y., Zviran A., Geula S., Gafni O., Chomsky E., Viukov S., Mansour A. A., Caspi I., Krupalnik V., Zerbib M., Maza I., Mor N., Baran D., Weinberger L., Jaitin D. A., Lara Astiaso A. D., Blecher-Gonen R., Shipony Z., Mukamel Z., Hagai T., Gilad S., Amann Zalcenstein D., Tanay A., Amit I., Novershtern N. & Hanna J. (. (2013), Nature. 502, 7469, p. 65-70
  • The Intestinal Microbiota in Chronic Liver Disease

    Authors: Henao-Mejia J., Elinav E., Thaiss C. A. & Flavell R. A. (2013), Advances in Immunology. p. 73-97
  • Beyond secondary structure: Primary-sequence determinants license Pri-miRNA hairpins for processing

    Authors: Auyeung V. C., Ulitsky I., McGeary S. E. & Bartel D. P. (2013), Cell. 152, 4, p. 844-858
  • Addiction of t(8;21) and inv(16) Acute Myeloid Leukemia to Native RUNX1

    Authors: Ben Ami A. O., Friedman D., Leshkowitz D., Goldenberg D., Orlovsky K., Pencovich N., Lotem J., Tanay A. & Groner Y. (2013), Cell Reports. 4, 6, p. 1131-1143
  • The geometry of the Pareto front in biological phenotype space

    Authors: Sheftel H., Shoval O., Mayo A. & Alon U. (2013), Ecology and Evolution. 3, 6, p. 1471-1483
  • Consistent Estimation of Gibbs Energy Using Component Contributions

    Authors: Noor E., Haraldsdóttir H. S., Milo R. & Fleming R. M. (2013), PLoS Computational Biology. 9, 7, e1003098
  • Linking the signaling cascades and dynamic regulatory networks controlling stress responses

    Authors: Gitter A., Carmi M., Barkai N. & Bar-Joseph Z. (2013), Genome Research. 23, 2, p. 365-376
  • Budding yeast escape commitment to the phosphate starvation program using gene expression noise

    Authors: Vardi N., Levy S., Assaf M., Carmi M. & Barkai N. (2013), Current Biology. 23, 20, p. 2051-2057
  • Transcriptome-Wide Mapping of 5-methylcytidine RNA Modifications in Bacteria, Archaea, and Yeast Reveals m5C within Archaeal mRNAs

    Authors: Edelheit S., Schwartz S., Mumbach M. R., Wurtzel O. & Sorek R. (2013), PLoS Genetics. 9, 6, e1003602
  • Cell-Autonomous Function of Runx1 Transcriptionally Regulates Mouse Megakaryocytic Maturation

    Authors: Pencovich N., Jaschek R., Dicken J., Amit A., Lotem J., Tanay A. & Groner Y. (2013), PLoS ONE. 8, 5, e64248
  • Developmental bias in the evolution of phalanges

    Authors: Kavanagh K. D., Shoval O., Winslow B. B., Alon U., Leary B. P., Kan A. & Tabin C. J. (2013), Proceedings of the National Academy of Sciences of the United States of America. 110, 45, p. 18190-18195
  • Mutation Rules and the Evolution of Sparseness and Modularity in Biological Systems

    Authors: Friedlander T., Mayo A. E., Tlusty T. & Alon U. (2013), PLoS ONE. 8, 8, e70444
  • Structural, Evolutionary, and Assembly Principles of Protein Oligomerization

  • The Utility of Paradoxical Components in Biological Circuits

    Authors: Hart Y. & Alon U. (2013), Molecular Cell. 49, 2, p. 213-221
  • Semiconductor-based DNA sequencing of histone modification states

    Authors: Cheng C. S., Rai K., Garber M., Hollinger A., Robbins D., Anderson S., Macbeth A., Tzou A., Carneiro M. O., Raychowdhury R., Russ C., Hacohen N., Gershenwald J. E., Lennon N., Nusbaum C., Chin L., Regev A. & Amit I. (2013), Nature Communications. 4, 2672
  • A note on the kinetics of enzyme action: A decomposition that highlights thermodynamic effects

    Authors: Noor E., Flamholz A., Liebermeister W., Bar-Even A. & Milo R. (2013), FEBS Letters. 587, 17, p. 2772-2777
  • Inferring gene expression from ribosomal promoter sequences, a crowdsourcing approach

    Authors: Meyer P., Siwo G., Zeevi D., Sharon E., Norel R., Segal E., Stolovitzky G., Rider A. K., Tan A., Pinapati R. S., Emrich S., Chawla N., Ferdig M. T., Tung Y. A., Chen Y. S., Chen M. J. M., Chen C. Y., Knight J. M., Sahraeian S. M. E. & Esfahani M. S. (2013), Genome Research. 23, 11, p. 1928-1937
  • RNF20 and USP44 Regulate Stem Cell Differentiation by Modulating H2B Monoubiquitylation

    Authors: Fuchs G., Shema E., Vesterman R., Kotler E., Wolchinsky Z., Wilder S., Golomb L., Pribluda A., Zhang F., Haj-Yahya M., Feldmesser E., Brik A., Yu X., Hanna J., Aberdam D., Domany E. & Oren M. (2012), Molecular Cell. 46, 5, p. 662-673
  • Improved readout precision of the bicoid morphogen gradient by early decoding

    Authors: Tamari Z. & Barkai N. (2012), Journal of Biological Physics. 38, 2, p. 317-329
  • Cellular crowding imposes global constraints on the chemistry and evolution of proteomes

  • Tracing the genesis of human embryonic stem cells

    Authors: Pribluda A. & Hanna J. H. (2012),
  • Extensive alternative polyadenylation during zebrafish development

    Authors: Ulitsky I., Shkumatava A., Jan C. H., Subtelny A. O., Koppstein D., Bell G. W., Sive H. & Bartel D. P. (2012), Genome Research. 22, 10, p. 2054-2066
  • Modeling ductal carcinoma in situ: A HER2-Notch3 collaboration enables luminal filling

    Authors: Pradeep C., Koestler W. J., Lauriola M., Granit R. Z., Zhang F., Jacob-Hirsch J., Rechavi G., Nair H. B., Hennessy B. T., Gonzalez-Angulo A. M., Tekmal R. R., Ben-Porath I., Mills G. B., Domany E. & Yarden Y. (2012), Oncogene. 31, 7, p. 907-917
  • Pharyngeal mesoderm regulatory network controls cardiac and head muscle morphogenesis

    Authors: Harel I., Maezawa Y., Avraham R., Rinon A., Ma H. Y., Cross J. W., Leviatan N., Hegesh J., Roy A., Jacob-Hirsch J., Rechavi G., Carvajal J., Tole S., Kioussi C., Quaggin S. & Tzahor E. (2012), Proceedings of the National Academy of Sciences of the United States of America. 109, 46, p. 18839-18844
  • Comparative transcriptomics of pathogenic and non-pathogenic Listeria species

    Authors: Wurtzel O., Sesto N., Mellin J. R., Karunker I., Edelheit S., Becavin C., Archambaud C., Cossart P. & Sorek R. (2012), Molecular Systems Biology. 8, 1, 583
  • Expression Noise and Acetylation Profiles Distinguish HDAC Functions

    Authors: Weinberger L., Voichek Y., Tirosh I., Hornung G., Amit I. & Barkai N. (2012), Molecular Cell. 47, 2, p. 193-202
  • Regulation of signalling by microRNAs

    Authors: Avraham R. & Yarden Y. (2012),
  • A mechanical turing machine: Blueprint for a biomolecular computer

    Authors: Shapiro E. (2012), Interface Focus. 2, 4, p. 497-503
  • Changes in exon-intron structure during vertebrate evolution affect the splicing pattern of exons

    Authors: Gelfman S., Burstein D., Penn O., Savchenko A., Amit M., Schwartz S., Pupko T. & Ast G. (2012), Genome Research. 22, 1, p. 35-50
  • PanDaTox: A tool for accelerated metabolic engineering

    Authors: Amitai G. & Sorek R. (2012), Bioengineered. 3, 4, p. 218-221
  • Protein abundance is key to distinguish promiscuous from functional phosphorylation based on evolutionary information

  • Surface growth of a motile bacterial population resembles growth in a chemostat

    Authors: Koster D. A., Mayo A., Bren A. & Alon U. (2012), Journal of Molecular Biology. 424, 3-4, p. 180-191
  • Chromosomal duplication is a transient evolutionary solution to stress

    Authors: Yona A. H., Manor Y. S., Herbst R. H., Romano G. H., Mitchell A., Kupiec M., Pilpel Y. & Dahan O. (2012), Proceedings of the National Academy of Sciences of the United States of America. 109, 51, p. 21010-21015
  • Axonal transcription factors signal retrogradely in lesioned peripheral nerve

    Authors: Ben-Yaakov K., Dagan S. Y., Segal-Ruder Y., Shalem O., Vuppalanchi D., Willis D. E., Yudin D., Rishal I., Rother F., Bader M., Blesch A., Pilpel Y., Twiss J. L. & Fainzilber M. (2012), EMBO Journal. 31, 6, p. 1350-1363
  • Efficiency in evolutionary trade-offs

    Authors: Noor E. & Milo R. (2012),
  • Epigenetic polymorphism and the stochastic formation of differentially methylated regions in normal and cancerous tissues

    Authors: Landan G., Cohen N. M., Mukamel Z., Bar A., Molchadsky A., Brosh R., Horn-Saban S., Zalcenstein D. A., Goldfinger N., Zundelevich A., Gal-Yam E. N., Rotter V. & Tanay A. (2012), Nature Genetics. 44, 11, p. 1207-1214
  • Silencing of a large microRNA cluster on human chromosome 14q32 in melanoma: biological effects of mir-376a and mir-376c on insulin growth factor 1 receptor

    Authors: Zehavi L., Avraham R., Barzilai A., Bar-Ilan D., Navon R., Sidi Y., Avni D. & Leibowitz-Amit R. (2012), Molecular Cancer. 11
  • Ergosterol content specifies targeting of tail-anchored proteins to mitochondrial outer membranes

    Authors: Krumpe K., Frumkin I., Herzig Y., Rimon N., Oezbalci C., Bruegger B., Rapaport D. & Schuldiner M. (2012), Molecular Biology of the Cell. 23, 20, p. 3927-3935
  • Design principles of cell circuits with paradoxical components

    Authors: Hart Y., Antebi Y. E., Mayo A. E., Friedman N. & Alon U. (2012), Proceedings of the National Academy of Sciences of the United States of America. 109, 21, p. 8346-8351
  • Dynamic Proteomics of Human Protein Level and Localization across the Cell Cycle

    Authors: Farkash-Amar S., Eden E., Cohen A., Geva Zatorsky Z. N., Cohen L., Milo R., Sigal A., Danon T. & Alon U. (2012), PLoS ONE. 7, 11, e48722
  • Thermodynamic constraints shape the structure of carbon fixation pathways

    Authors: Bar-Even A., Flamholz A., Noor E. & Milo R. (2012), Biochimica Et Biophysica Acta-Bioenergetics. 1817, 9, p. 1646-1659
  • A systematic approach to pair secretory cargo receptors with their cargo suggests a mechanism for cargo selection by erv14

    Authors: Herzig Y., Sharpe H. J., Elbaz Y., Munro S. & Schuldiner M. (2012), PLoS Biology. 10, 5, e1001329
  • Modeling invasive breast cancer: growth factors propel progression of HER2-positive premalignant lesions

    Authors: Pradeep C., Zeisel A., Koestler W. J., Lauriola M., Jacob-Hirsch J., Haibe-Kains B., Amariglio N., Ben Chetrit C. N., Emde A. M., Solomonov I., Neufeld G., Piccart M., Sagi I., Sotiriou C., Rechavi G., Domany E., Desmedt C. & Yarden Y. (2012), Oncogene. 31, 31, p. 3569-3583
  • Clonal allelic predetermination of immunoglobulin-kappa rearrangement

    Authors: Farago M., Rosenbluh C., Tevlin M., Fraenkel S., Schlesinger S., Masika H., Gouzman M., Teng G., Schatz D., Rais Y., Hanna J. H., Mildner A., Jung S., Mostoslavsky G., Cedar H. & Bergman Y. (2012), Nature. 490, 7421, p. 561-+
  • The Single-Nucleotide Resolution Transcriptome of Pseudomonas aeruginosa Grown in Body Temperature

    Authors: Wurtzel O., Yoder-Himes D. R., Han K., Dandekar A. A., Edelheit S., Greenberg E. P., Sorek R. & Lory S. (2012), PLoS Pathogens. 8, 9, e1002945
  • New insights into replication origin characteristics in metazoans

    Authors: Cayrou C., Coulombe P., Puy A., Rialle S., Kaplan N., Segal E. & Mechali M. (2012), Cell Cycle. 11, 4, p. 658-667
  • Optimality in the development of intestinal crypts

    Authors: Itzkovitz S., Blat I. C., Jacks T., Clevers H. & Van Oudenaarden A. (2012), Cell. 148, 3, p. 608-619
  • A vast collection of microbial genes that are toxic to bacteria

    Authors: Kimelman A., Levy A., Sberro H., Kidron S., Leavitt A., Amitai G., Yoder-Himes D. R., Wurtzel O., Zhu Y., Rubin E. M. & Sorek R. (2012), Genome Research. 22, 4, p. 802-809
  • The H3K27 demethylase Utx regulates somatic and germ cell epigenetic reprogramming

    Authors: Mansour A. A., Gafni O., Weinberger L., Zviran A., Ayyash M., Rais Y., Krupalnik V., Zerbib M., Amann Zalcenstein D., Maza I., Geula S., Viukov S., Holtzman L., Pribluda A., Canaani E., Horn-Saban S., Amit I., Novershtern N. & Hanna J. H. (2012), Nature. 488, 7411, p. 409-+
  • Nanowire-mediated delivery enables functional interrogation of primary immune cells: Application to the analysis of chronic lymphocytic leukemia

    Authors: Shalek A. K., Gaublomme J. T., Wang L., Yosef N., Chevrier N., Andersen M. S., Robinson J. T., Pochet N., Neuberg D., Gertner R. S., Amit I., Brown J. R., Hacohen N., Regev A., Wu C. J. & Park H. (2012), Nano Letters. 12, 12, p. 6498-6504
  • Transcriptome-wide discovery of circular RNAs in Archaea

    Authors: Danan M., Schwartz S., Edelheit S. & Sorek R. (2012), Nucleic Acids Research. 40, 7, p. 3131-3142
  • Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq

    Authors: Dominissini D., Moshitch-Moshkovitz S., Schwartz S., Salmon-Divon M., Ungar L., Osenberg S., Cesarkas K., Jacob-Hirsch J., Amariglio N., Kupiec M., Sorek R. & Rechavi G. (2012), Nature. 485, 7397, p. 201-206
  • From catalogue to function

    Authors: Segal E. (2012), Nature. 489, 7414, p. 55-55
  • Dynamic changes in translational efficiency are deduced from codon usage of the transcriptome

    Authors: Gingold H., Dahan O. & Pilpel Y. (2012), Nucleic Acids Research. 40, 20, p. 10053-10063
  • Decoding Human Cytomegalovirus

    Authors: Stern-Ginossar N., Weisburd B., Michalski A., Vu Thuy Khanh Le, Hein M. Y., Huang S., Ma M., Shen B., Qian S., Hengel H., Mann M., Ingolia N. T. & Weissman J. S. (2012), Science. 338, 6110, p. 1088-1093
  • Functional consequences of Necdin nucleocytoplasmic localization

    Authors: Lavi-Itzkovitz A., Tcherpakov M., Levy Z., Itzkovitz S., Muscatelli F. & Fainzilber M. (2012), PLoS ONE. 7, 3, e33786
  • Recursive construction of perfect DNA molecules and libraries from imperfect oligonucleotides

    Authors: Linshiz G., Yehezkel T. B. & Shapiro E. (2012), Gene Synthesis. Peccoud J. (eds.). p. 151-163 (trueMethods in Molecular Biology).
  • Interactions of subunit CCT3 in the yeast chaperonin CCT/TRiC with Q/N-rich proteins revealed by high-throughput microscopy analysis

    Authors: Nadler-Holly M., Breker M., Gruber R., Azia A., Gymrek M., Eisenstein M., Willison K. R., Schuldiner M. & Horovitz A. (2012), Proceedings of the National Academy of Sciences of the United States of America. 109, 46, p. 18833-18838
  • Inferring gene regulatory logic from high-throughput measurements of thousands of systematically designed promoters

    Authors: Sharon E., Kalma Y., Sharp A., Raveh - Sadka -. S. T., Levo M., Zeevi D., Keren L., Yakhini Z., Weinberger A. & Segal E. (2012), Nature Biotechnology. 30, 6, p. 521-+
  • Promoter nucleosome organization shapes the evolution of gene expression

    Authors: Rosin D., Hornung G., Tirosh I., Gispan A. & Barkai N. (2012), PLoS Genetics. 8, 3, e1002579
  • Robust 4C-seq data analysis to screen for regulatory DNA interactions

    Authors: van de Werken d. W. H. J. G., Landan G., Holwerda S. J. B., Hoichman M., Klous P., Chachik R., Splinter E., Valdes-Quezada C., Oz Y., Bouwman B. A. M., Verstegen M. J. A. M., de Wit W. E., Tanay A. & de Laat L. W. (2012), Nature Methods. 9, 10, p. 969-972
  • A proof for loop-law constraints in stoichiometric metabolic networks

    Authors: Noor E., Lewis N. E. & Milo R. (2012), BMC Systems Biology. 6, 140
  • RNA-seq analysis of small RNPs in Trypanosoma brucei reveals a rich repertoire of non-coding RNAs

    Authors: Michaeli S., Doniger T., Gupta S. K., Wurtzel O., Romano M., Visnovezky D., Sorek R., Unger R. & Ullu E. (2012), Nucleic Acids Research. 40, 3, p. 1282-1298
  • Tumour micro-environment elicits innate resistance to RAF inhibitors through HGF secretion

    Authors: Straussman R., Morikawa T., Shee K., Barzily-Rokni M., Qian Z. R., Du J., Davis A., Mongare M. M., Gould J., Frederick D. T., Cooper Z. A., Chapman P. B., Solit D. B., Ribas A., Lo R. S., Flaherty K. T., Ogino S., Wargo J. A. & Golub T. R. (2012), Nature. 487, 7408, p. 500-504
  • A crossroad of microRNAs and immediate early genes (IEGs) encoding oncogenic transcription factors in breast cancer

    Authors: Sas-Chen A., Avraham R. & Yarden Y. (2012), Journal of Mammary Gland Biology and Neoplasia. 17, 1, p. 3-14
  • Cell lineage analysis of acute leukemia relapse uncovers the role of replication-rate heterogeneity and microsatellite instability

    Authors: Shlush L. I., Chapal Ilani I. N., Adar R., Pery N., Maruvka Y., Spiro A., Shouval R., Rowe J. M., Tzukerman M., Bercovich D., Izraeli S., Marcucci G., Bloomfield C. D., Zuckerman T., Skorecki K. & Shapiro E. (2012), Blood. 120, 3, p. 603-612
  • miR-10b*, a master inhibitor of the cell cycle, is down-regulated in human breast tumours

    Authors: Biagioni F., Ben-Moshe N. B., Fontemaggi G., Canu V., Mori F., Antoniani B., Di Benedetto B. A., Santoro R., Germoni S., De Angelis A. F., Cambria A., Avraham R., Grasso G., Strano S., Muti P., Mottolese M., Yarden Y., Domany E. & Blandino G. (2012), EMBO Molecular Medicine. 4, 11, p. 1214-1229
  • Cell lineage analysis of the mammalian female germline

    Authors: Reizel Y., Itzkovitz S., Adar R., Elbaz J., Jinich A., Chapal Ilani I. N., Maruvka Y. E., Nevo N., Marx Z., Horovitz I., Wasserstrom A., Mayo A., Shur I., Benayahu D., Skorecki K., Segal E., Dekel N. & Shapiro E. (2012), PLoS Genetics. 8, 2, e1002477
  • Using bleach-chase to measure protein half-lives in living cells

    Authors: Geva Zatorsky Z. N., Issaeva I., Mayo A., Cohen A., Dekel E., Danon T., Cohen L., Liron Y., Alon U. & Eden E. (2012), Nature protocols. 7, 4, p. 801-811
  • Achieving diversity in the face of constraints: Lessons from metabolism

    Authors: Milo R. & Last R. L. (2012), Science. 336, 6089, p. 1663-1667
  • Disentangling signaling gradients generated by equivalent sources

    Authors: Rappaport N. & Barkai N. (2012), Journal of Biological Physics. 38, 2, p. 267-278
  • eQuilibrator: the biochemical thermodynamics calculator

    Authors: Flamholz A., Noor E., Bar-Even A. & Milo R. (2012), Nucleic Acids Research. 40, D1, p. D770-D775
  • Teasing Apart Translational and Transcriptional Components of Stochastic Variations in Eukaryotic Gene Expression

    Authors: Salari R., Wojtowicz D., Zheng J., Levens D., Pilpel Y. & Przytycka T. M. (2012), PLoS Computational Biology. 8, 8, e1002644
  • A survey of carbon fixation pathways through a quantitative lens

    Authors: Bar-Even A., Noor E. & Milo R. (2012), Journal of Experimental Botany. 63, 6, p. 2325-2342
  • Mode of Regulation and the Insulation of Bacterial Gene Expression

    Authors: Sasson V., Shachrai I., Bren A., Dekel E. & Alon U. (2012), Molecular Cell. 46, 4, p. 399-407
  • Slug and Sox9 cooperatively determine the mammary stem cell state

    Authors: Guo W., Keckesova Z., Donaher J. L., Shibue T., Tischler V., Reinhardt F., Itzkovitz S., Noske A., Zürrer-Härdi U., Bell G., Tam W. L., Mani S. A., Van Oudenaarden A. & Weinberg R. A. (2012), Cell. 148, 5, p. 1015-1028
  • A High-Throughput Chromatin Immunoprecipitation Approach Reveals Principles of Dynamic Gene Regulation in Mammals

    Authors: Garber M., Yosef N., Goren A., Raychowdhury R., Thielke A., Guttman M., Robinson J., Minie B., Chevrier N., Itzhaki Z., Blecher-Gonen R., Bornstein C., Amann Zalcenstein D., Weiner A., Friedrich D., Meldrim J., Ram O., Cheng C., Gnirke A., Fisher S., Friedmann N., Wong B., Bernstein B. E., Nusbaum C., Hacohen N., Regev A. & Amit I. (2012), Molecular Cell. 47, 5, p. 810-822
  • EGR1 and the ERK-ERF axis drive mammary cell migration in response to EGF

    Authors: Tarcic G., Avraham R., Pines G., Amit I., Shay T., Lu Y., Zwang Y., Katz M., Ben Chetrit C. N., Jacob-Hirsch J., Virgilio L., Rechavi G., Mavrothalassitis G., Mills G. B., Domany E. & Yarden Y. (2012), FASEB Journal. 26, 4, p. 1582-1592
  • A Critical Role for the Wnt Effector Tcf4 in Adult Intestinal Homeostatic Self-Renewal

    Authors: Itzkovitz S., Koo B., Boj S. F., Korving J., van den Born d. B. M., van Oudenaarden O. A., Robine S. & Clevers H. (2012), Molecular and Cellular Biology. 32, 10, p. 1918-1927
  • Noise-mean relationship in mutated promoters

    Authors: Hornung G., Bar-Ziv R., Rosin D., Tokuriki N., Tawfik D., Oren M. & Barkai N. (2012), Genome Research. 22, 12, p. 2409-2417
  • Identification of CTCF as a master regulator of the clustered protocadherin genes

    Authors: Golan-Mashiach M., Grunspan M., Emmanuel R., Gibbs-Bar L., Dikstein R. & Shapiro E. (2012), Nucleic Acids Research. 40, 8, p. 3378-3391
  • An integrated open framework for thermodynamics of reactions that combines accuracy and coverage

    Authors: Noor E., Bar-Even A., Flamholz A., Lubling Y., Davidi D. & Milo R. (2012), Bioinformatics. 28, 15, p. 2037-2044, bts317
  • Differential GC Content between Exons and Introns Establishes Distinct Strategies of Splice-Site Recognition

    Authors: Amit M., Donyo M., Hollander D., Goren A., Kim E., Gelfman S., Lev-Maor G., Burstein D., Schwartz S., Postolsky B., Pupko T. & Ast G. (2012), Cell Reports. 1, 5, p. 543-556
  • Context-specific microRNA analysis: Identification of functional microRNAs and their mRNA targets

    Authors: Ben-Moshe N. B., Avraham R., Kedmi M., Zeisel A., Yitzhaky A., Yarden Y. & Domany E. (2012), Nucleic Acids Research. 40, 21, p. 10614-10627
  • Confinement to Organelle-Associated Inclusion Structures Mediates Asymmetric Inheritance of Aggregated Protein in Budding Yeast

    Authors: Spokoini R., Moldavski O., Nahmias Y., England J. L., Schuldiner M. & Kaganovich D. (2012), Cell Reports. 2, 4, p. 738-747
  • Programmable In Vivo Selection of Arbitrary DNA Sequences

    Authors: Ben-Yehezkel T., Biezuner T., Linshiz G., Mazor Y. & Shapiro E. (2012), PLoS ONE. 7, 11, e47795
  • Evolutionary trade-offs, pareto optimality, and the geometry of phenotype space

    Authors: Shoval O., Sheftel H., Shinar G., Hart Y., Ramote O., Mayo A., Dekel E., Kavanagh K. & Alon U. (2012), Science. 336, 6085, p. 1157-1160
  • Genome-wide Measurement of RNA Folding Energies

    Authors: Wan Y., Qu K., Ouyang Z., Kertesz M., Li J., Tibshirani R., Makino D. L., Nutter R. C., Segal E. & Chang H. Y. (2012), Molecular Cell. 48, 2, p. 169-181
  • CRISPR targeting reveals a reservoir of common phages associated with the human gut microbiome

    Authors: Stern A., Mick E., Tirosh I., Sagy O. & Sorek R. (2012), Genome Research. 22, 10, p. 1985-1994
  • Inferring divergence of context-dependent substitution rates in drosophila genomes with applications to comparative genomics

    Authors: Chachick R. & Tanay A. (2012), Molecular Biology and Evolution. 29, 7, p. 1769-1780
  • Rethinking glycolysis: On the biochemical logic of metabolic pathways

    Authors: Bar-Even A., Flamholz A., Noor E. & Milo R. (2012), Nature Chemical Biology. 8, 6, p. 509-517
  • The Lgr5 intestinal stem cell signature: robust expression of proposed quiescent '+4' cell markers

    Authors: van de Wetering d. W. M., Koo B., Itzkovitz S., Volckmann R., Kung K. S., Koster J., Radulescu S., Myant K., Versteeg R., Sansom O. J., van Es E. J. H., Barker N., van Oudenaarden O. A., Mohammed S., Heck A. J. R. & Clevers H. (2012), EMBO Journal. 31, 14, p. 3079-3091
  • Self-organized shuttling: Generating sharp dorsoventral polarity in the early Drosophila embryo

    Authors: Haskel-Ittah M., Ben-Zvi D., Branski-Arieli M., Schejter E. D., Shilo B. Z. & Barkai N. (2012), Cell. 150, 5, p. 1016-1028
  • Nucleosome Organization Affects the Sensitivity of Gene Expression to Promoter Mutations

    Authors: Hornung G., Oren M. & Barkai N. (2012), Molecular Cell. 46, 3, p. 362-368
  • MiR-10b Downregulates the Stress-Induced Cell Surface Molecule MICB, a Critical Ligand for Cancer Cell Recognition by Natural Killer Cells

    Authors: Tsukerman P., Stern-Ginossar N., Gur C., Glasner A., Nachmani D., Bauman Y., Yamin R., Vitenshtein A., Stanietsky N., Bar-Mag T., Lankry D. & Mandelboim O. (2012), Cancer Research. 72, 21, p. 5463-5472
  • Manipulating nucleosome disfavoring sequences allows fine-tune regulation of gene expression in yeast

    Authors: Raveh - Sadka -. S. T., Levo M., Shabi U., Shany B., Keren L., Lotan-Pompan M., Zeevi D., Sharon E., Weinberger A. & Segal E. (2012), Nature Genetics. 44, 7, p. 743-750
  • Correction: Programmable In Vivo Selection of Arbitrary DNA Sequences

    Authors: Ben Yehezkel T., Biezuner T., Linshiz G., Mazor Y. & Shapiro E. (2012),
  • A programmable NOR-based device for transcription profile analysis

    Authors: Ran T., Douek Y., Milo L. & Shapiro E. (2012), Scientific Reports. 2, 641
  • M(odu)LLating the Innate Response

    Authors: Blecher-Gonen R. & Amit I. (2012), Immunity. 36, 4, p. 551-552
  • Efficiency and specificity in microRNA biogenesis

    Authors: Barad O., Mann M., Chapnik E., Shenoy A., Blelloch R., Barkai N. & Hornstein E. (2012), Nature Structural & Molecular Biology. 19, 6, p. 650-652
  • Three-dimensional folding and functional organization principles of the Drosophila genome

    Authors: Sexton T., Yaffe E., Kenigsberg E., Bantignies F., Leblanc B., Hoichman M., Parrinello H., Tanay A. & Cavalli G. (2012), Cell. 148, 3, p. 458-472
  • Prediction of Microbial Growth Rate versus Biomass Yield by a Metabolic Network with Kinetic Parameters

    Authors: Adadi R., Volkmer B., Milo R., Heinemann M. & Shlomi T. (2012), PLoS Computational Biology. 8, 7
  • A genome-wide analysis of promoter-mediated phenotypic noise in Escherichia coli

    Authors: Silander O. K., Nikolic N., Zaslaver A., Bren A., Kikoin I., Alon U. & Ackermann M. (2012), PLoS Genetics. 8, 1, e1002443