Ivan Kulakovskiy - Google Scholar Citations

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	All	Since 2015
Citations	2423	2124
h-index	18	17
i10-index	24	22

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Vsevolod MakeevVavilov Institute of General Genetics, Department of computational systems biologyVerified email at vigg.ru
Ilya VorontsovVavilov Institute of General GeneticsVerified email at vigg.ru
Yulia A MedvedevaResearch Center of Biotechnology RASVerified email at biengi.ac.ru
Eliseeva IrinaInstitute of protein research RASVerified email at vega.protres.ru
Alexander Favorovresearch associate@oncbiostat.jhu.edu; senior fellow reasearcher@vigg.ruVerified email at sensi.org
Valentina BoevaAssistant Prof., ETH Zürich, Department of Computer ScienceVerified email at inf.ethz.ch
Dmitry KuprashEngelhardt Institute of Molecular BiologyVerified email at eimb.ru
Marina FridmanResearcher of Vavilov Institute of General GeneticsVerified email at vigg.ru
Anton SchwartzEngelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, RussiaVerified email at eimb.ru
Wail Ba-alawiPrincess Margaret Cancer Center, UHN; Medical Biophysics, UofTVerified email at uhnresearch.ca
Aleksey PeninThe Institute for Information Transmission Problems of the Russian Academy of SciencesVerified email at de.bio.msu.ru
Grigory KhimulyaPrivateVerified email at alumni.harvard.edu
Abdullah M KhamisKing Abdullah University of Science and Technology (KAUST)Verified email at kaust.edu.sa
Konstantin KozlovPeter the Great St.Petersburg Polytechnic University (SPbPU)Verified email at spbstu.ru
Maria SamsonovaProfessor, Peter the Great St.Petersburg Polytechnic University (SPbPU)Verified email at spbstu.ru
Nina OparinaUppsala University, Uppsala, SwedenVerified email at imbim.uu.se
Sergey DmitrievBelozersky Institute of Physico-Chemical Biology, Moscow State UniversityVerified email at belozersky.msu.ru
Alistair ForrestHead of Systems Biology and Genomics at, The Harry Perkins Institute for Medical ResearchVerified email at perkins.uwa.edu.au
Timo LassmannTelethon Kids InstituteVerified email at telethonkids.org.au
hideya kawajiRIKEN PMIVerified email at gsc.riken.jp

Ivan Kulakovskiy

Engelhardt Institute of Molecular Biology RAS; Vavilov Institute of General Genetics RAS

Verified email at vigg.ru - Homepage

bioinformatics genomics high-throughput sequencing


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A promoter-level mammalian expression atlas TF Consortium Nature 507 (7493), 462-470, 2014	844*	2014
HOCOMOCO: a comprehensive collection of human transcription factor binding sites models IV Kulakovskiy, YA Medvedeva, U Schaefer, AS Kasianov, IE Vorontsov, ... Nucleic Acids Research 41 (D1), D195-D202, 2013	208	2013
HOCOMOCO: towards a complete collection of transcription factor binding models for human and mouse via large-scale ChIP-Seq analysis IV Kulakovskiy, IE Vorontsov, IS Yevshin, RN Sharipov, AD Fedorova, ... Nucleic acids research 46 (D1), D252-D259, 2018	176	2018
Effects of cytosine methylation on transcription factor binding sites YA Medvedeva, AM Khamis, IV Kulakovskiy, W Ba-Alawi, MSI Bhuyan, ... BMC Genomics 15 (1), 119, 2014	176	2014
HOCOMOCO: expansion and enhancement of the collection of transcription factor binding sites models IV Kulakovskiy, IE Vorontsov, IS Yevshin, AV Soboleva, AS Kasianov, ... Nucleic acids research 44 (D1), D116-D125, 2016	152	2016
Deep and wide digging for binding motifs in ChIP-Seq data IV Kulakovskiy, VA Boeva, AV Favorov, VJ Makeev Bioinformatics 26 (20), 2622-2623, 2010	147	2010
EpiFactors: a comprehensive database of human epigenetic factors and complexes YA Medvedeva, A Lennartsson, R Ehsani, IV Kulakovskiy, IE Vorontsov, ... Database 2015, bav067, 2015	96	2015
Intergenic, gene terminal, and intragenic CpG islands in the human genome Y Medvedeva, M Fridman, N Oparina, D Malko, E Ermakova, ... BMC genomics 11 (1), 48, 2010	83	2010
From binding motifs in ChIP-seq data to improved models of transcription factor binding sites I KULAKOVSKIY, V LEVITSKY, D OSHCHEPKOV, L BRYZGALOV, ... Journal of Bioinformatics and Computational Biology, 2013	56	2013
Jaccard index based similarity measure to compare transcription factor binding site models IE Vorontsov, IV Kulakovskiy, VJ Makeev Algorithms for Molecular Biology 8 (1), 23, 2013	43	2013
Single-Cell Analyses of ESCs Reveal Alternative Pluripotent Cell States and Molecular Mechanisms that Control Self-Renewal D Papatsenko, H Darr, IV Kulakovskiy, A Waghray, VJ Makeev, ... Stem Cell Reports 5 (2), 207-220, 2015	40	2015
Motif discovery and motif finding from genome-mapped DNase footprint data IV Kulakovskiy, AV Favorov, VJ Makeev Bioinformatics 25 (18), 2318-2325, 2009	36	2009
Application of experimentally verified transcription factor binding sites models for computational analysis of ChIP-Seq data VG Levitsky, IV Kulakovskiy, NI Ershov, DY Oshchepkov, VJ Makeev, ... BMC genomics 15 (1), 80, 2014	33	2014
Discovery of DNA motifs recognized by transcription factors through integration of different experimental sources IV Kulakovskiy, VJ Makeev Biophysics 54 (6), 667-674, 2009	32	2009
Architectural proteins Pita, Zw5, and ZIPIC contain homodimerization domain and support specific long-range interactions in Drosophila N Zolotarev, A Fedotova, O Kyrchanova, A Bonchuk, AA Penin, AS Lando, ... Nucleic acids research 44 (15), 7228-7241, 2016	31	2016
Spi-1/PU. 1 activates transcription through clustered DNA occupancy in erythroleukemia M Ridinger-Saison, V Boeva, P Rimmelé, I Kulakovskiy, I Gallais, ... Nucleic Acids Research 40 (18), 8927-8941, 2012	25	2012
Sequence-based model of gap gene regulatory network K Kozlov, V Gursky, I Kulakovskiy, M Samsonova BMC Genomics 15 (Suppl 12), S6, 2014	21	2014
PERFECTOS-APE-predicting regulatory functional effect of SNPs by approximate P-value estimation IE Vorontsov, IV Kulakovskiy, G Khimulya, DD Nikolaeva, VJ Makeev International Conference on Bioinformatics Models, Methods and Algorithms 2 …, 2015	20	2015
Early B-cell factor 1 (EBF1) is critical for transcriptional control of SLAMF1 gene in human B cells AM Schwartz, LV Putlyaeva, M Covich, AV Klepikova, KA Akulich, ... Biochimica et Biophysica Acta (BBA)-Gene Regulatory Mechanisms 1859 (10 …, 2016	17	2016
High‐quality genome assembly of Capsella bursa‐pastoris reveals asymmetry of regulatory elements at early stages of polyploid genome evolution AS Kasianov, AV Klepikova, IV Kulakovskiy, ES Gerasimov, AV Fedotova, ... The Plant Journal 91 (2), 278-291, 2017	16	2017

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