Timothy Danford

TL;DR: An initial map of yeast's transcriptional regulatory code is constructed by identifying the sequence elements that are bound by regulators under various conditions and that are conserved among Saccharomyces species.

TL;DR: It is demonstrated that the binding sites for highly conserved transcription factors vary extensively between human and mouse, and from 41% to 89% of their binding events seem to be species specific.

TL;DR: A genome-wide comparison of deletion mutant phenotypes identified a subset of genes that were conditionally essential by strain, including 44 essential genes unique to Σ1278b and 13 unique to reference strain S288c.

TL;DR: It is found that hepatocyte master regulators tend to bind promoter regions combinatorially and that the number of transcription factors bound to a promoter corresponds with observed gene expression.

TL;DR: JBD uses additional easily obtainable experimental data about chromatin immunoprecipitation to improve the spatial resolution of the transcription factor binding locations inferred from ChIP followed by DNA microarray hybridization data and produces positional priors that link ChIP-Chip data to sequence data by guiding motif discovery to inferred protein-DNA binding sites.