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A compendium of Caenorhabditis elegans regulatory transcription factors: a resource for mapping transcription regulatory networks

John S Reece-Hoyes†, Bart Deplancke†, Jane Shingles, Christian A Grove, Ian A Hope and Albertha JM Walhout*

Genome Biology 2005, 6:R110 doi:10.1186/gb-2005-6-13-r110

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Research article   Open Access

Does negative auto-regulation increase gene duplicability?

Tobias Warnecke, Guang-Zhong Wang, Martin J Lercher, Laurence D Hurst BMC Evolutionary Biology 2009, 9:193 (7 August 2009)

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TFCat: the curated catalog of mouse and human transcription factors

Debra L Fulton, Saravanan Sundararajan, Gwenael Badis, Timothy R Hughes, Wyeth W Wasserman, Jared C Roach, Rob Sladek Genome Biology 2009, 10:R29 (12 March 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | Editor’s summary

TFCat is a catalog of mouse and human transcription factors based on a reliable core collection of annotations obtained by expert review of the scientific literature

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Comparative analysis of function and interaction of transcription factors in nematodes: Extensive conservation of orthology coupled to rapid sequence evolution

Wilfried Haerty, Carlo Artieri, Navid Khezri, Rama S Singh, Bhagwati P Gupta BMC Genomics 2008, 9:399 (27 August 2008)

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Text-mining assisted regulatory annotation

Stein Aerts, Maximilian Haeussler, Steven van Vooren, Obi L Griffith, Paco Hulpiau, Steven JM Jones, Stephen B Montgomery, Casey M Bergman, Genome Biology 2008, 9:R31 (13 February 2008)

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Text-mining technologies can be integrated with genome annotation systems, increasing the availability of annotated cis-regulatory data.

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Parallel evolution of conserved non-coding elements that target a common set of developmental regulatory genes from worms to humans

Tanya Vavouri, Klaudia Walter, Walter R Gilks, Ben Lehner, Greg Elgar Genome Biology 2007, 8:R15 (2 February 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | Editor’s summary

Invertebrate conserved noncoding elements (CNEs) are associated with the same core set of genes as vertebrate CNEs, and may reflect the parallel evolution of enhancers in the gene regulatory networks that define alternative animal body plans.

Research article   Open Access

Insight into transcription factor gene duplication from Caenorhabditis elegans Promoterome-driven expression patterns

John S Reece-Hoyes, Jane Shingles, Denis Dupuy, Christian A Grove, Albertha JM Walhout, Marc Vidal, Ian A Hope BMC Genomics 2007, 8:27 (23 January 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Database   Open Access

EDGEdb: a transcription factor-DNA Interaction database for the analysis of C. elegans differential gene expression

M Inmaculada Barrasa, Philippe Vaglio, Fabien Cavasino, Laurent Jacotot, Albertha JM Walhout BMC Genomics 2007, 8:21 (18 January 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

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