Tommy Kaplan

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Nir FriedmanProfessor of Computer Science and Medicine, 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
Netanel LoyferPhD candidate, Hebrew Unviersity of JerusalemVerified email at mail.huji.ac.il
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
Naomi HabibHebrew University of Jerusalem IsraelVerified email at elsc.huji.ac.il
Minkyu KimUniversity of California, San FranciscoVerified email at ucsf.edu
michal schwartzprofessorVerified email at weizmann.ac.il
Joshua MossMD-PhD candidate, Hebrew Unviersity of JerusalemVerified email at mail.huji.ac.il
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
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
Miri VarshavskyComputer Science and Computational Biology, Hebrew University of JerusalemVerified email at mail.huji.ac.il
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

Tommy Kaplan

Professor of Computer Science and Computational Biology, The Hebrew University

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

Computational Biology Genomics DNA methylation Machine Learning cell-free DNA


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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	643	2005
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	636	2007
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), 5068, 2018	504	2018
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	448	2020
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	347	2011
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	304	2003
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	284	2012
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	264	2008
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	261	2009
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	251	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	210	2011
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	188	2014
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	173	2008
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	159	2015
Ab initio prediction of transcription factor targets using structural knowledge T Kaplan, N Friedman, H Margalit PLoS computational biology 1 (1), e1, 2005	148	2005
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	127	2017
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	106	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	106	2010
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	79	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	73	2013

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