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» Propagator: A Family of Patterns
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BMCBI
2006
117views more  BMCBI 2006»
13 years 10 months ago
Incorporating background frequency improves entropy-based residue conservation measures
Background: Several entropy-based methods have been developed for scoring sequence conservation in protein multiple sequence alignments. High scoring amino acid positions may corr...
Kai Wang, Ram Samudrala
JACM
2007
84views more  JACM 2007»
13 years 9 months ago
Polymorphic higher-order recursive path orderings
This paper extends the termination proof techniques based on reduction orderings to a higher-order setting, by defining a family of recursive path orderings for terms of a typed ...
Jean-Pierre Jouannaud, Albert Rubio
BMCBI
2005
102views more  BMCBI 2005»
13 years 9 months ago
Modelling the interaction of steroid receptors with endocrine disrupting chemicals
Background: The organic polychlorinated compounds like dichlorodiphenyltrichloroethane with its metabolites and polychlorinated biphenyls are a class of highly persistent environm...
Pasqualina D'Ursi, Erika Salvi, Paola Fossa, Lucia...
BMCBI
2004
208views more  BMCBI 2004»
13 years 9 months ago
Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structures
Background: Hidden Markov Models (HMMs) have proven very useful in computational biology for such applications as sequence pattern matching, gene-finding, and structure prediction...
Vadim Alexandrov, Mark Gerstein
BMCBI
2010
131views more  BMCBI 2010»
13 years 4 months ago
Dynamics based alignment of proteins: an alternative approach to quantify dynamic similarity
Background: The dynamic motions of many proteins are central to their function. It therefore follows that the dynamic requirements of a protein are evolutionary constrained. In or...
Márton Münz, Rune B. Lyngsø, Jo...