Tommy Kaplan

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Nir FriedmanProfessor of Computer Science and Medicine, Hebrew UniversityVerifisert e-postadresse på mail.huji.ac.il
Netanel LoyferPhD candidate, Hebrew Unviersity of JerusalemVerifisert e-postadresse på mail.huji.ac.il
Michael B. EisenInvestigator, HHMI and Associate Professor of Molecular and Cell Biology, UC BerkeleyVerifisert e-postadresse på berkeley.edu
Yuval DorProfessor of Biology, Hebrew University of JerusalemVerifisert e-postadresse på ekmd.huji.ac.il
Benjamin GlaserHadassah-Hebrew University Medical CenterVerifisert e-postadresse på mail.huji.ac.il
Ruth ShemerVerifisert e-postadresse på mail.huji.ac.il
Melissa HarrisonProfessorVerifisert e-postadresse på wisc.edu
Oliver RandoProfessor of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical SchoolVerifisert e-postadresse på umassmed.edu
Joshua MossHadassah Hebrew University Medical CenterVerifisert e-postadresse på mail.huji.ac.il
michal schwartzprofessorVerifisert e-postadresse på weizmann.ac.il
Hanah MargalitThe Hebrew University of JerusalemVerifisert e-postadresse på ekmd.huji.ac.il
Naomi HabibHebrew University of Jerusalem IsraelVerifisert e-postadresse på elsc.huji.ac.il
Minkyu KimUniversity of Texas Health Science Center San AntonioVerifisert e-postadresse på uthscsa.edu
Miri Varshavsky HassidComputer Science and Computational Biology, Hebrew University of JerusalemVerifisert e-postadresse på mail.huji.ac.il
Len A. PennacchioSenior Staff Scientist, Lawrence Berkeley National LaboratoryVerifisert e-postadresse på lbl.gov
Axel ViselLawrence Berkeley National LaboratoryVerifisert e-postadresse på lbl.gov
Dalit MayMD/PhD, Consultant Clinical Genetics, Shaare Zedek Medical Center. GP Clalit Health ServicesVerifisert e-postadresse på clalit.org.il
Matthew BlowResearch scientist, Joint Genome InstituteVerifisert e-postadresse på lbl.gov
Edward M RubinScience CorpsVerifisert e-postadresse på science-corps.org
Mike BotchanProfessor of Molecular and Cell BiologyVerifisert e-postadresse på berkeley.edu

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Tommy Kaplan

Professor of Computer Science and Computational Biology, The Hebrew University

Verifisert e-postadresse på cs.huji.ac.il - Startside

Computational Biology Genomics DNA methylation Machine Learning cell-free DNA


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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	780	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	665	2020
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	663	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	659	2007
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	381	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	321	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	313	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	279	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	278	2013
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	273	2009
A DNA methylation atlas of normal human cell types N Loyfer, J Magenheim, A Peretz, G Cann, J Bredno, A Klochendler, ... Nature 613 (7943), 355-364, 2023	241	2023
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	219	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	218	2014
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	186	2015
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	180	2008
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	164	2017
Ab initio prediction of transcription factor targets using structural knowledge T Kaplan, N Friedman, H Margalit PLoS computational biology 1 (1), e1, 2005	149	2005
ChIP-seq of plasma cell-free nucleosomes identifies gene expression programs of the cells of origin R Sadeh, I Sharkia, G Fialkoff, A Rahat, J Gutin, A Chappleboim, M Nitzan, ... Nature Biotechnology, 1-13, 2021	120	2021
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	118	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	110	2010

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