231 related articles for article (PubMed ID: 28957653)
21. UniBind: maps of high-confidence direct TF-DNA interactions across nine species.
Puig RR; Boddie P; Khan A; Castro-Mondragon JA; Mathelier A
BMC Genomics; 2021 Jun; 22(1):482. PubMed ID: 34174819
[TBL] [Abstract][Full Text] [Related]
22. Uncovering cis-regulatory sequence requirements for context-specific transcription factor binding.
Yáñez-Cuna JO; Dinh HQ; Kvon EZ; Shlyueva D; Stark A
Genome Res; 2012 Oct; 22(10):2018-30. PubMed ID: 22534400
[TBL] [Abstract][Full Text] [Related]
23. Computational identification of combinatorial regulation and transcription factor binding sites.
Ryu T; Kim Y; Kim DW; Lee D
Biotechnol Bioeng; 2007 Aug; 97(6):1594-602. PubMed ID: 17252601
[TBL] [Abstract][Full Text] [Related]
24. A generic approach to identify Transcription Factor-specific operator motifs; Inferences for LacI-family mediated regulation in Lactobacillus plantarum WCFS1.
Francke C; Kerkhoven R; Wels M; Siezen RJ
BMC Genomics; 2008 Mar; 9():145. PubMed ID: 18371204
[TBL] [Abstract][Full Text] [Related]
25. Profiling of chromatin accessibility and identification of general cis-regulatory mechanisms that control two ocular lens differentiation pathways.
Zhao Y; Zheng D; Cvekl A
Epigenetics Chromatin; 2019 May; 12(1):27. PubMed ID: 31053165
[TBL] [Abstract][Full Text] [Related]
26. Non-targeted transcription factors motifs are a systemic component of ChIP-seq datasets.
Worsley Hunt R; Wasserman WW
Genome Biol; 2014 Jul; 15(7):412. PubMed ID: 25070602
[TBL] [Abstract][Full Text] [Related]
27. Factorbook: an updated catalog of transcription factor motifs and candidate regulatory motif sites.
Pratt HE; Andrews GR; Phalke N; Purcaro MJ; van der Velde A; Moore JE; Weng Z
Nucleic Acids Res; 2022 Jan; 50(D1):D141-D149. PubMed ID: 34755879
[TBL] [Abstract][Full Text] [Related]
28. Learning position weight matrices from sequence and expression data.
Chen X; Guo L; Fan Z; Jiang T
Comput Syst Bioinformatics Conf; 2007; 6():249-60. PubMed ID: 17951829
[TBL] [Abstract][Full Text] [Related]
29. A widespread role of the motif environment in transcription factor binding across diverse protein families.
Dror I; Golan T; Levy C; Rohs R; Mandel-Gutfreund Y
Genome Res; 2015 Sep; 25(9):1268-80. PubMed ID: 26160164
[TBL] [Abstract][Full Text] [Related]
30. Molecular and structural considerations of TF-DNA binding for the generation of biologically meaningful and accurate phylogenetic footprinting analysis: the LysR-type transcriptional regulator family as a study model.
Oliver P; Peralta-Gil M; Tabche ML; Merino E
BMC Genomics; 2016 Aug; 17(1):686. PubMed ID: 27567672
[TBL] [Abstract][Full Text] [Related]
31. Nonconsensus Protein Binding to Repetitive DNA Sequence Elements Significantly Affects Eukaryotic Genomes.
Afek A; Cohen H; Barber-Zucker S; Gordân R; Lukatsky DB
PLoS Comput Biol; 2015 Aug; 11(8):e1004429. PubMed ID: 26285121
[TBL] [Abstract][Full Text] [Related]
32. An efficient method to transcription factor binding sites imputation via simultaneous completion of multiple matrices with positional consistency.
Guo WL; Huang DS
Mol Biosyst; 2017 Aug; 13(9):1827-1837. PubMed ID: 28718849
[TBL] [Abstract][Full Text] [Related]
33. Revealing transcription factor and histone modification co-localization and dynamics across cell lines by integrating ChIP-seq and RNA-seq data.
Zhang L; Xue G; Liu J; Li Q; Wang Y
BMC Genomics; 2018 Dec; 19(Suppl 10):914. PubMed ID: 30598100
[TBL] [Abstract][Full Text] [Related]
34. MEME-ChIP: motif analysis of large DNA datasets.
Machanick P; Bailey TL
Bioinformatics; 2011 Jun; 27(12):1696-7. PubMed ID: 21486936
[TBL] [Abstract][Full Text] [Related]
35. Informational requirements for transcriptional regulation.
O'Neill PK; Forder R; Erill I
J Comput Biol; 2014 May; 21(5):373-84. PubMed ID: 24689750
[TBL] [Abstract][Full Text] [Related]
36. FisherMP: fully parallel algorithm for detecting combinatorial motifs from large ChIP-seq datasets.
Zhang S; Liang Y; Wang X; Su Z; Chen Y
DNA Res; 2019 Jun; 26(3):231-242. PubMed ID: 30957858
[TBL] [Abstract][Full Text] [Related]
37. Inference of hierarchical regulatory network of estrogen-dependent breast cancer through ChIP-based data.
Gu F; Hsu HK; Hsu PY; Wu J; Ma Y; Parvin J; Huang TH; Jin VX
BMC Syst Biol; 2010 Dec; 4():170. PubMed ID: 21167036
[TBL] [Abstract][Full Text] [Related]
38. A biophysical model for analysis of transcription factor interaction and binding site arrangement from genome-wide binding data.
He X; Chen CC; Hong F; Fang F; Sinha S; Ng HH; Zhong S
PLoS One; 2009 Dec; 4(12):e8155. PubMed ID: 19956545
[TBL] [Abstract][Full Text] [Related]
39. abc4pwm: affinity based clustering for position weight matrices in applications of DNA sequence analysis.
Ali O; Farooq A; Yang M; Jin VX; Bjørås M; Wang J
BMC Bioinformatics; 2022 Mar; 23(1):83. PubMed ID: 35240993
[TBL] [Abstract][Full Text] [Related]
40. Dynamic motif occupancy (DynaMO) analysis identifies transcription factors and their binding sites driving dynamic biological processes.
Kuang Z; Ji Z; Boeke JD; Ji H
Nucleic Acids Res; 2018 Jan; 46(1):e2. PubMed ID: 29325176
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]
