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» Finding regulatory elements and regulatory motifs: a general...
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BMCBI
2007
105views more  BMCBI 2007»
13 years 4 months ago
Finding regulatory elements and regulatory motifs: a general probabilistic framework
Over the last two decades a large number of algorithms has been developed for regulatory motif finding. Here we show how many of these algorithms, especially those that model bind...
Erik van Nimwegen
BMCBI
2006
87views more  BMCBI 2006»
13 years 4 months ago
Phylogeny based discovery of regulatory elements
Background: Algorithms that locate evolutionarily conserved sequences have become powerful tools for finding functional DNA elements, including transcription factor binding sites;...
Jason Gertz, Justin C. Fay, Barak A. Cohen
BMCBI
2007
148views more  BMCBI 2007»
13 years 4 months ago
WeederH: an algorithm for finding conserved regulatory motifs and regions in homologous sequences
Background: This work addresses the problem of detecting conserved transcription factor binding sites and in general regulatory regions through the analysis of sequences from homo...
Giulio Pavesi, Federico Zambelli, Graziano Pesole
ISBRA
2009
Springer
13 years 11 months ago
Mining of cis-Regulatory Motifs Associated with Tissue-Specific Alternative Splicing
KIM, JIHYE. Mining of Cis-Regulatory Motifs Associated with Tissue-Specific Alternative Splicing. (Under the direction of Steffen Heber). Alternative splicing (AS) is an important...
Jihye Kim, Sihui Zhao, Brian E. Howard, Steffen He...
ALMOB
2006
138views more  ALMOB 2006»
13 years 4 months ago
A combinatorial optimization approach for diverse motif finding applications
Background: Discovering approximately repeated patterns, or motifs, in biological sequences is an important and widely-studied problem in computational molecular biology. Most fre...
Elena Zaslavsky, Mona Singh