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Prediction of synergistic transcription factors by function conservation
Zihua Hu, Boyu Hu, James F Collins
Genome Biol. 2007; 8(12): R257. Published online 2007 December 5. doi: 10.1186/gb-2007-8-12-r257
PMCID:
PMC2246259
Abstract Full Text PDF–667K Supplementary Material

Is Cited by the Following 9 Articles in this Archive:

Simplified Method to Predict Mutual Interactions of Human Transcription Factors Based on Their Primary Structure
Sebastian Schmeier, Boris Jankovic, Vladimir B. Bajic
PLoS One. 2011; 6(7): e21887. Published online 2011 July 5. doi: 10.1371/journal.pone.0021887
PMCID:
PMC3130058
Abstract Full Text PDF–116K Supplementary Material
Genome-wide identification of conserved regulatory function in diverged sequences
Leila Taher, David M. McGaughey, Samantha Maragh, Ivy Aneas, Seneca L. Bessling, Webb Miller, Marcelo A. Nobrega, Andrew S. McCallion, Ivan Ovcharenko
Genome Res. 2011 July; 21(7): 1139–1149. doi: 10.1101/gr.119016.110
PMCID:
PMC3129256
Abstract Full Text PDF–645K
Transcriptional regulation of the Menkes copper ATPase (Atp7a) gene by hypoxia-inducible factor (HIF2α) in intestinal epithelial cells
Liwei Xie, James F. Collins
Am J Physiol Cell Physiol. 2011 June; 300(6): C1298–C1305. Published online 2011 February 23. doi: 10.1152/ajpcell.00023.2011
PMCID:
PMC3118616
Free in PMC on 2012/06/01
Homotypic clusters of transcription factor binding sites are a key component of human promoters and enhancers
Valer Gotea, Axel Visel, John M. Westlund, Marcelo A. Nobrega, Len A. Pennacchio, Ivan Ovcharenko
Genome Res. 2010 May; 20(5): 565–577. doi: 10.1101/gr.104471.109
PMCID:
PMC2860159
Abstract Full Text PDF–855K
Functional annotation of novel lineage-specific genes using co-expression and promoter analysis
Charu G Kumar, Robin E Everts, Juan J Loor, Harris A Lewin
BMC Genomics. 2010; 11: 161. Published online 2010 March 9. doi: 10.1186/1471-2164-11-161
PMCID:
PMC2848242
Abstract Full Text PDF–1.4M Supplementary Material
Identification of interacting transcription factors regulating tissue gene expression in human
Zihua Hu, Steven M Gallo
BMC Genomics. 2010; 11: 49. Published online 2010 January 19. doi: 10.1186/1471-2164-11-49
PMCID:
PMC2822763
Abstract Full Text PDF–507K Supplementary Material
Variable locus length in the human genome leads to ascertainment bias in functional inference for non-coding elements
Leila Taher, Ivan Ovcharenko
Bioinformatics. 2009 March 1; 25(5): 578–584. Published online 2009 January 25. doi: 10.1093/bioinformatics/btp043
PMCID:
PMC2647827
Abstract Full Text PDF–252K Supplementary Material
Regulatory potential for concerted modulation of Nrf2- and Nfkb1-mediated gene expression in inflammation and carcinogenesis
S Nair, S T Doh, J Y Chan, A-N Kong, L Cai
Br J Cancer. 2008 December 9; 99(12): 2070–2082. Published online 2008 December 2. doi: 10.1038/sj.bjc.6604703
PMCID:
PMC2607222
Abstract Full Text PDF–517K
Associating transcription factor-binding site motifs with target GO terms and target genes
Mikael Bodén, Timothy L. Bailey
Nucleic Acids Res. 2008 July; 36(12): 4108–4117. Published online 2008 July. doi: 10.1093/nar/gkn374
PMCID:
PMC2475605
Abstract Full Text PDF–141K Supplementary Material
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