Title: "Identifying Transcription Factor Binding Sites in Human-Mouse Comparative Genome Sequences"
Speaker: Dr. Jun Xie, Department of Statistics, Purdue University
Place: Stanley Coulter (SC) 239; Tuesday, September 21, 2004, 4:30pm


Transcription factor binding sites are DNA elements important for gene regulation. The computational identification of transcription factor binding sites (TFBS) through the analysis of DNA sequence data has emerged as a major technology for the elucidation of transcription regulatory networks. To increase the specificity of the prediction of TFBSs, conserved sequences from the comparison of orthologous genes are often used. In this talk, we extend the idea of utilizing sequence similarity by directly modelling pairs of Human-Mouse sequences. Gibbs sampling strategy is used to search for statistically over-presented elements in pairs of Human-Mouse sequences. Moreover, to reflect the co-occurrence of TFBSs, i.e., the cis-regulatory modules, a Bayesian selection procedure is developed to select an appropriate sequence subset before searching for any single TFBS. The methods are applied to a set of 103 E2F target genes, which reveals more results than that of simply TRANFAC scanning.

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