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» Identifying Binding Sites in Sequential Genomic Data
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BMCBI
2008
90views more  BMCBI 2008»
13 years 8 months ago
Genome-scale study of the importance of binding site context for transcription factor binding and gene regulation
Background: The rate of mRNA transcription is controlled by transcription factors that bind to specific DNA motifs in promoter regions upstream of protein coding genes. Recent res...
Jakub Orzechowski Westholm, Feifei Xu, Hans Ronne,...
NAR
2011
204views Computer Vision» more  NAR 2011»
12 years 11 months ago
CLIPZ: a database and analysis environment for experimentally determined binding sites of RNA-binding proteins
The stability, localization and translation rate of mRNAs are regulated by a multitude of RNAbinding proteins (RBPs) that find their targets directly or with the help of guide RNA...
Mohsen Khorshid, Christoph Rodak, Mihaela Zavolan
RECOMB
2001
Springer
14 years 8 months ago
Context-specific Bayesian clustering for gene expression data
The recent growth in genomic data and measurements of genome-wide expression patterns allows us to apply computational tools to examine gene regulation by transcription factors. I...
Yoseph Barash, Nir Friedman
BMCBI
2007
99views more  BMCBI 2007»
13 years 8 months ago
Statistical significance of cis-regulatory modules
Background: It is becoming increasingly important for researchers to be able to scan through large genomic regions for transcription factor binding sites or clusters of binding si...
Dustin E. Schones, Andrew D. Smith, Michael Q. Zha...
BMCBI
2008
128views more  BMCBI 2008»
13 years 8 months ago
Finding sequence motifs with Bayesian models incorporating positional information: an application to transcription factor bindin
Background: Biologically active sequence motifs often have positional preferences with respect to a genomic landmark. For example, many known transcription factor binding sites (T...
Nak-Kyeong Kim, Kannan Tharakaraman, Leonardo Mari...