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» Identifying Binding Sites in Sequential Genomic Data
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BMCBI
2004
117views more  BMCBI 2004»
13 years 8 months ago
CisOrtho: A program pipeline for genome-wide identification of transcription factor target genes using phylogenetic footprinting
Background: All known genomes code for a large number of transcription factors. It is important to develop methods that will reveal how these transcription factors act on a genome...
Henry R. Bigelow, Adam S. Wenick, Allan Wong, Oliv...
BMCBI
2010
156views more  BMCBI 2010»
13 years 8 months ago
PeakAnalyzer: Genome-wide annotation of chromatin binding and modification loci
Background: Functional genomic studies involving high-throughput sequencing and tiling array applications, such as ChIP-seq and ChIP-chip, generate large numbers of experimentally...
Mali Salmon-Divon, Heidi Dvinge, Kairi Tammoja, Pa...
BMCBI
2004
93views more  BMCBI 2004»
13 years 8 months ago
Predicting binding sites of hydrolase-inhibitor complexes by combining several methods
Background: Protein-protein interactions play a critical role in protein function. Completion of many genomes is being followed rapidly by major efforts to identify interacting pr...
Taner Z. Sen, Andrzej Kloczkowski, Robert L. Jerni...
BMCBI
2007
148views more  BMCBI 2007»
13 years 8 months ago
fREDUCE: Detection of degenerate regulatory elements using correlation with expression
Background: The precision of transcriptional regulation is made possible by the specificity of physical interactions between transcription factors and their cognate binding sites ...
Randy Z. Wu, Christina Chaivorapol, Jiashun Zheng,...
BMCBI
2008
133views more  BMCBI 2008»
13 years 8 months ago
CORE_TF: a user-friendly interface to identify evolutionary conserved transcription factor binding sites in sets of co-regulated
Background: The identification of transcription factor binding sites is difficult since they are only a small number of nucleotides in size, resulting in large numbers of false po...
Matthew S. Hestand, Michiel van Galen, Michel P. V...