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BMCBI
2008
128views more  BMCBI 2008»
13 years 7 months ago
SIGffRid: A tool to search for sigma factor binding sites in bacterial genomes using comparative approach and biologically drive
Background: Many programs have been developed to identify transcription factor binding sites. However, most of them are not able to infer two-word motifs with variable spacer leng...
Fabrice Touzain, Sophie Schbath, Isabelle Debled-R...
BMCBI
2008
100views more  BMCBI 2008»
13 years 7 months ago
Extracting transcription factor binding sites from unaligned gene sequences with statistical models
Background: Transcription factor binding sites (TFBSs) are crucial in the regulation of gene transcription. Recently, chromatin immunoprecipitation followed by cDNA microarray hyb...
Chung-Chin Lu, Wei-Hao Yuan, Te-Ming Chen
RECOMB
2003
Springer
14 years 7 months ago
Modeling dependencies in protein-DNA binding sites
The availability of whole genome sequences and high-throughput genomic assays opens the door for in silico analysis of transcription regulation. This includes methods for discover...
Yoseph Barash, Gal Elidan, Nir Friedman, Tommy Kap...
RECOMB
2008
Springer
14 years 7 months ago
A Fast, Alignment-Free, Conservation-Based Method for Transcription Factor Binding Site Discovery
As an increasing number of eukaryotic genomes are being sequenced, comparative studies aimed at detecting regulatory elements in intergenic sequences are becoming more prevalent. M...
Raluca Gordân, Leelavati Narlikar, Alexander...
IDA
2008
Springer
13 years 7 months ago
Transcription factor binding site recognition by regularity matrices based on the natural classification method
A principally new approach to the classifications of nucleotide sequences based on the "natural" classification concept is proposed. As a result of "natural" c...
Eugenii E. Vityaev, K. A. Lapardin, I. V. Khomiche...