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IMSCCS
2006
IEEE
14 years 1 months ago
Combining Comparative Genomics with de novo Motif Discovery to Identify Human Transcription Factor DNA-Binding Motifs
Background: As more and more genomes are sequenced, comparative genomics approaches provide a methodology for identifying conserved regulatory elements that may be involved in gen...
Linyong Mao, W. Jim Zheng
IDA
2008
Springer
13 years 7 months ago
ExpertDiscovery system application for the hierarchical analysis of eukaryotic transcription regulatory regions based on DNA cod
We developed Relational Data Mining approach which allows to overcome essential limitations of the Data Mining and Knowledge Discovery techniques. In the paper the approach was im...
I. V. Khomicheva, Eugenii E. Vityaev, Elena A. Ana...
BMCBI
2005
122views more  BMCBI 2005»
13 years 7 months ago
Quantitative analysis of EGR proteins binding to DNA: assessing additivity in both the binding site and the protein
Background: Recognition codes for protein-DNA interactions typically assume that the interacting positions contribute additively to the binding energy. While this is known to not ...
Jiajian Liu, Gary D. Stormo
BMCBI
2010
96views more  BMCBI 2010»
13 years 7 months ago
ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data
Background: Chromatin immunoprecipitation (ChIP) followed by high-throughput sequencing (ChIP-seq) or ChIP followed by genome tiling array analysis (ChIP-chip) have become standar...
Lihua J. Zhu, Claude Gazin, Nathan D. Lawson, Herv...
BMCBI
2007
164views more  BMCBI 2007»
13 years 7 months ago
SEARCHPATTOOL: a new method for mining the most specific frequent patterns for binding sites with application to prokaryotic DNA
Background: Computational methods to predict transcription factor binding sites (TFBS) based on exhaustive algorithms are guaranteed to find the best patterns but are often limite...
Fathi Elloumi, Martha Nason