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BMCBI
2005

Ab initio identification of putative human transcription factor binding sites by comparative genomics

11 years 5 months ago
Ab initio identification of putative human transcription factor binding sites by comparative genomics
Background: Understanding transcriptional regulation of gene expression is one of the greatest challenges of modern molecular biology. A central role in this mechanism is played by transcription factors, which typically bind to specific, short DNA sequence motifs usually located in the upstream region of the regulated genes. We discuss here a simple and powerful approach for the ab initio identification of these cis-regulatory motifs. The method we present integrates several elements: human-mouse comparison, statistical analysis of genomic sequences and the concept of coregulation. We apply it to a complete scan of the human genome. Results: By using the catalogue of conserved upstream sequences collected in the CORG database we construct sets of genes sharing the same overrepresented motif (short DNA sequence) in their upstream regions both in human and in mouse. We perform this construction for all possible motifs from 5 to 8 nucleotides in length and then filter the resulting sets ...
Davide Corà, Carl Herrmann, Christoph Diete
Added 15 Dec 2010
Updated 15 Dec 2010
Type Journal
Year 2005
Where BMCBI
Authors Davide Corà, Carl Herrmann, Christoph Dieterich, Ferdinando Di Cunto, Paolo Provero, Michele Caselle
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