Tommy Kaplan

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Nir FriedmanProfessor of Computer Science and Life Sciences, Hebrew UniversityVerified email at mail.huji.ac.il
Michael B. EisenInvestigator, HHMI and Associate Professor of Molecular and Cell Biology, UC BerkeleyVerified email at berkeley.edu
Oliver RandoProfessor of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical SchoolVerified email at umassmed.edu
Hanah MargalitThe Hebrew University of JerusalemVerified email at ekmd.huji.ac.il
Minkyu KimUniversity of California, San FranciscoVerified email at ucsf.edu
Naomi HabibHebrew University of Jerusalem IsraelVerified email at elsc.huji.ac.il
Len A. PennacchioSenior Staff Scientist, Lawrence Berkeley National LaboratoryVerified email at lbl.gov
Axel ViselLawrence Berkeley National LaboratoryVerified email at lbl.gov
Dalit MayMD/PhD, Family Physician, Clalit Health ServicesVerified email at clalit.org.il
Matthew BlowResearch scientist, Joint Genome InstituteVerified email at lbl.gov
Edward M RubinScience CorpsVerified email at science-corps.org
Gal ElidanHebrew University / GoogleVerified email at huji.ac.il
Yoseph BarashAssociate Professor of Genetics and Computer & Information Science, University of PennsylvaniaVerified email at upenn.edu
michal schwartzprofessorVerified email at weizmann.ac.il
Joshua MossMD-PhD candidate, Hebrew Unviersity of JerusalemVerified email at mail.huji.ac.il
Moran YassourThe Hebrew University of JerusalemVerified email at mail.huji.ac.il
Michael F DionHarvard UniversityVerified email at cgr.harvard.edu
Yuval DorProfessor of Biology, Hebrew University of JerusalemVerified email at ekmd.huji.ac.il
Benjamin GlaserHadassah-Hebrew University Medical CenterVerified email at mail.huji.ac.il
Ruth ShemerVerified email at mail.huji.ac.il

Tommy Kaplan

Professor of Computer Science and Computational Biology, The Hebrew University

Verified email at cs.huji.ac.il - Homepage

Computational Biology cfDNA methylation Machine Learning Enhancers


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Dynamics of replication-independent histone turnover in budding yeast MF Dion, T Kaplan, M Kim, S Buratowski, N Friedman, OJ Rando Science 315 (5817), 1405, 2007	605	2007
Single-nucleosome mapping of histone modifications in S. cerevisiae CL Liu, T Kaplan, M Kim, S Buratowski, SL Schreiber, N Friedman, ... PLoS biology 3 (10), e328, 2005	600	2005
Modeling dependencies in protein-DNA binding sites Y Barash, G Elidan, N Friedman, T Kaplan Proceedings of the seventh annual international conference on Research in …, 2003	300	2003
Zelda Binding in the Early Drosophila melanogaster Embryo Marks Regions Subsequently Activated at the Maternal-to-Zygotic Transition MM Harrison, XY Li, T Kaplan, MR Botchan, MB Eisen PLoS genetics 7 (10), e1002266, 2011	293	2011
Large-scale discovery of enhancers from human heart tissue D May, MJ Blow, T Kaplan, DJ McCulley, BC Jensen, JA Akiyama, A Holt, ... Nature genetics 44 (1), 89-93, 2012	261	2012
Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing M Yassour, T Kaplan, HB Fraser, JZ Levin, J Pfiffner, X Adiconis, ... Proceedings of the National Academy of Sciences 106 (9), 3264-3269, 2009	251	2009
Comprehensive human cell-type methylation atlas reveals origins of circulating cell-free DNA in health and disease J Moss, J Magenheim, D Neiman, H Zemmour, N Loyfer, A Korach, ... Nature communications 9 (1), 1-12, 2018	236	2018
Structure and function of a transcriptional network activated by the MAPK Hog1 AP Capaldi, T Kaplan, Y Liu, N Habib, A Regev, N Friedman, EK O'Shea Nature genetics 40 (11), 1300-1306, 2008	234	2008
A high-resolution enhancer atlas of the developing telencephalon A Visel, L Taher, H Girgis, D May, O Golonzhka, RV Hoch, GL McKinsey, ... Cell 152 (4), 895-908, 2013	220	2013
Quantitative Models of the Mechanisms That Control Genome-Wide Patterns of Transcription Factor Binding during Early Drosophila Development T Kaplan, XY Li, PJ Sabo, S Thomas, JA Stamatoyannopoulos, MD Biggin, ... PLoS genetics 7 (2), e1001290, 2011	199	2011
Disease-associated astrocytes in Alzheimer’s disease and aging N Habib, C McCabe, S Medina, M Varshavsky, D Kitsberg, ... Nature Neuroscience 23 (6), 701-706, 2020	166	2020
Cell cycle–and chaperone-mediated regulation of H3K56ac incorporation in yeast T Kaplan, CL Liu, JA Erkmann, J Holik, M Grunstein, PD Kaufman, ... PLoS genetics 4 (11), e1000270, 2008	160	2008
Establishment of regions of genomic activity during the Drosophila maternal to zygotic transition XY Li, MM Harrison, JE Villalta, T Kaplan, MB Eisen Elife 3, e03737, 2014	145	2014
Ab initio prediction of transcription factor targets using structural knowledge T Kaplan, N Friedman, H Margalit PLoS computational biology 1 (1), e1, 2005	140	2005
Zelda is differentially required for chromatin accessibility, transcription factor binding, and gene expression in the early Drosophila embryo KN Schulz, ER Bondra, A Moshe, JE Villalta, JD Lieb, T Kaplan, ... Genome research 25 (11), 1715-1726, 2015	127	2015
Extensive Divergence of Transcription Factor Binding in Drosophila Embryos with Highly Conserved Gene Expression M Paris, T Kaplan, XY Li, JE Villalta, SE Lott, MB Eisen PLoS genetics 9 (9), e1003748, 2013	99	2013
Roles for H2A.Z and Its Acetylation in GAL1 Transcription and Gene Induction, but Not GAL1-Transcriptional Memory JE Halley, T Kaplan, AY Wang, MS Kobor, J Rine PLoS biology 8 (6), e1000401, 2010	97	2010
Promoter-enhancer interactions identified from Hi-C data using probabilistic models and hierarchical topological domains G Ron, Y Globerson, D Moran, T Kaplan Nature Communications 8 (1), 2237, 2017	87	2017
High throughput determination of TGFβ1/SMAD3 targets in A549 lung epithelial cells Y Zhang, D Handley, T Kaplan, H Yu, AS Bais, T Richards, KV Pandit, ... PloS one 6 (5), e20319, 2011	69	2011
Taf7l cooperates with Trf2 to regulate spermiogenesis H Zhou, I Grubisic, K Zheng, Y He, PJ Wang, T Kaplan, R Tjian Proceedings of the National Academy of Sciences 110 (42), 16886-16891, 2013	67	2013

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