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BMCBI
2006
137views more  BMCBI 2006»
14 years 11 months ago
A maximum likelihood framework for protein design
Background: The aim of protein design is to predict amino-acid sequences compatible with a given target structure. Traditionally envisioned as a purely thermodynamic question, thi...
Claudia L. Kleinman, Nicolas Rodrigue, Céci...
BMCBI
2006
108views more  BMCBI 2006»
14 years 11 months ago
Probe set algorithms: is there a rational best bet?
Affymetrix microarrays have become a standard experimental platform for studies of mRNA expression profiling. Their success is due, in part, to the multiple oligonucleotide featur...
Jinwook Seo, Eric P. Hoffman
BMCBI
2006
130views more  BMCBI 2006»
14 years 11 months ago
An accurate and interpretable model for siRNA efficacy prediction
Background: The use of exogenous small interfering RNAs (siRNAs) for gene silencing has quickly become a widespread molecular tool providing a powerful means for gene functional s...
Jean-Philippe Vert, Nicolas Foveau, Christian Laja...
BMCBI
2006
87views more  BMCBI 2006»
14 years 11 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
2006
136views more  BMCBI 2006»
14 years 11 months ago
EMD: an ensemble algorithm for discovering regulatory motifs in DNA sequences
Background: Understanding gene regulatory networks has become one of the central research problems in bioinformatics. More than thirty algorithms have been proposed to identify DN...
Jianjun Hu, Yifeng D. Yang, Daisuke Kihara