Makeev VJ - Search Results

1

Single-Cell Analyses of ESCs Reveal Alternative Pluripotent Cell States and Molecular Mechanisms that Control Self-Renewal.

Papatsenko D, Darr H, Kulakovskiy IV, Waghray A, Makeev VJ, MacArthur BD, Lemischka IR. Papatsenko D, et al. Among authors: makeev vj. Stem Cell Reports. 2015 Aug 11;5(2):207-20. doi: 10.1016/j.stemcr.2015.07.004. Stem Cell Reports. 2015. PMID: 26267829 Free PMC article.

2

Extraction of functional binding sites from unique regulatory regions: the Drosophila early developmental enhancers.

Papatsenko DA, Makeev VJ, Lifanov AP, Régnier M, Nazina AG, Desplan C. Papatsenko DA, et al. Among authors: makeev vj. Genome Res. 2002 Mar;12(3):470-81. doi: 10.1101/gr.212502. Genome Res. 2002. PMID: 11875036 Free PMC article.

3

Homotypic regulatory clusters in Drosophila.

Lifanov AP, Makeev VJ, Nazina AG, Papatsenko DA. Lifanov AP, et al. Among authors: makeev vj. Genome Res. 2003 Apr;13(4):579-88. doi: 10.1101/gr.668403. Genome Res. 2003. PMID: 12670999 Free PMC article.

4

Distance preferences in the arrangement of binding motifs and hierarchical levels in organization of transcription regulatory information.

Makeev VJ, Lifanov AP, Nazina AG, Papatsenko DA. Makeev VJ, et al. Nucleic Acids Res. 2003 Oct 15;31(20):6016-26. doi: 10.1093/nar/gkg799. Nucleic Acids Res. 2003. PMID: 14530449 Free PMC article.

5

Short fuzzy tandem repeats in genomic sequences, identification, and possible role in regulation of gene expression.

Boeva V, Regnier M, Papatsenko D, Makeev V. Boeva V, et al. Bioinformatics. 2006 Mar 15;22(6):676-84. doi: 10.1093/bioinformatics/btk032. Epub 2006 Jan 10. Bioinformatics. 2006. PMID: 16403795

6

Motif discovery and motif finding from genome-mapped DNase footprint data.

Kulakovskiy IV, Favorov AV, Makeev VJ. Kulakovskiy IV, et al. Among authors: makeev vj. Bioinformatics. 2009 Sep 15;25(18):2318-25. doi: 10.1093/bioinformatics/btp434. Epub 2009 Jul 15. Bioinformatics. 2009. PMID: 19605419

7

Intergenic, gene terminal, and intragenic CpG islands in the human genome.

Medvedeva YA, Fridman MV, Oparina NJ, Malko DB, Ermakova EO, Kulakovskiy IV, Heinzel A, Makeev VJ. Medvedeva YA, et al. Among authors: makeev vj. BMC Genomics. 2010 Jan 19;11:48. doi: 10.1186/1471-2164-11-48. BMC Genomics. 2010. PMID: 20085634 Free PMC article.

8

Empirical potentials for ion binding in proteins.

Rahmanov S, Kulakovskiy I, Uroshlev L, Makeev V. Rahmanov S, et al. J Bioinform Comput Biol. 2010 Jun;8(3):427-35. doi: 10.1142/s0219720010004641. J Bioinform Comput Biol. 2010. PMID: 20556854

9

Deep and wide digging for binding motifs in ChIP-Seq data.

Kulakovskiy IV, Boeva VA, Favorov AV, Makeev VJ. Kulakovskiy IV, et al. Among authors: makeev vj. Bioinformatics. 2010 Oct 15;26(20):2622-3. doi: 10.1093/bioinformatics/btq488. Epub 2010 Aug 24. Bioinformatics. 2010. PMID: 20736340

10

A deeper look into transcription regulatory code by preferred pair distance templates for transcription factor binding sites.

Kulakovskiy IV, Belostotsky AA, Kasianov AS, Esipova NG, Medvedeva YA, Eliseeva IA, Makeev VJ. Kulakovskiy IV, et al. Among authors: makeev vj. Bioinformatics. 2011 Oct 1;27(19):2621-4. doi: 10.1093/bioinformatics/btr453. Epub 2011 Aug 18. Bioinformatics. 2011. PMID: 21852305

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