These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
2. Most of the tight positional conservation of transcription factor binding sites near the transcription start site reflects their co-localization within regulatory modules. Acevedo-Luna N; Mariño-Ramírez L; Halbert A; Hansen U; Landsman D; Spouge JL BMC Bioinformatics; 2016 Nov; 17(1):479. PubMed ID: 27871221 [TBL] [Abstract][Full Text] [Related]
3. 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]
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 Nucleic Acids Res; 2003 Oct; 31(20):6016-26. PubMed ID: 14530449 [TBL] [Abstract][Full Text] [Related]
5. The GCN4 bZIP can bind to noncognate gene regulatory sequences. Fedorova AV; Chan IS; Shin JA Biochim Biophys Acta; 2006 Jul; 1764(7):1252-9. PubMed ID: 16784907 [TBL] [Abstract][Full Text] [Related]
10. Cold shock protein YB-1 is involved in hypoxia-dependent gene transcription. Rauen T; Frye BC; Wang J; Raffetseder U; Alidousty C; En-Nia A; Floege J; Mertens PR Biochem Biophys Res Commun; 2016 Sep; 478(2):982-7. PubMed ID: 27524241 [TBL] [Abstract][Full Text] [Related]
11. Survey of protein-DNA interactions in Aspergillus oryzae on a genomic scale. Wang C; Lv Y; Wang B; Yin C; Lin Y; Pan L Nucleic Acids Res; 2015 May; 43(9):4429-46. PubMed ID: 25883143 [TBL] [Abstract][Full Text] [Related]
13. Predicting transcription factor binding motifs from DNA-binding domains, chromatin accessibility and gene expression data. Zamanighomi M; Lin Z; Wang Y; Jiang R; Wong WH Nucleic Acids Res; 2017 Jun; 45(10):5666-5677. PubMed ID: 28472398 [TBL] [Abstract][Full Text] [Related]
14. De novo prediction of cis-regulatory elements and modules through integrative analysis of a large number of ChIP datasets. Niu M; Tabari ES; Su Z BMC Genomics; 2014 Dec; 15():1047. PubMed ID: 25442502 [TBL] [Abstract][Full Text] [Related]
15. footprintDB: a database of transcription factors with annotated cis elements and binding interfaces. Sebastian A; Contreras-Moreira B Bioinformatics; 2014 Jan; 30(2):258-65. PubMed ID: 24234003 [TBL] [Abstract][Full Text] [Related]
16. Analysis of the association between transcription factor binding site variants and distinct accompanying regulatory motifs in yeast. Chiang S; Swamy KB; Hsu TW; Tsai ZT; Lu HH; Wang D; Tsai HK Gene; 2012 Jan; 491(2):237-45. PubMed ID: 21963994 [TBL] [Abstract][Full Text] [Related]
17. In silico analysis of the promoter region of olfactory receptors in cattle ( Samuel B; Dinka H Nucleosides Nucleotides Nucleic Acids; 2020; 39(6):853-865. PubMed ID: 32028828 [TBL] [Abstract][Full Text] [Related]