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    BIBE
    2005
    IEEE
    121views Bioinformatics» more  BIBE 2005»
    RNA Pseudoknot Prediction Using Term Rewriting
    14 years 1 months ago
    RNA Pseudoknot Prediction Using Term Rewriting
    Download  www.cs.missouri.edu
    RNA plays a critical role in mediating every step of cellular information transfer from genes to functional proteins. Pseudoknots are widely occurring structural motifs found in a...
    Xuezheng Fu, Hao Wang, William L. Harrison, Robert...
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    BMCBI
    2006
    112views more  BMCBI 2006»
    Algorithms for incorporating prior topological information in HMMs: application to transmembrane proteins
    13 years 8 months ago
    Algorithms for incorporating prior topological information in HMMs: application to transmembrane proteins
    Download  www.biomedcentral.com
    Background: Hidden Markov Models (HMMs) have been extensively used in computational molecular biology, for modelling protein and nucleic acid sequences. In many applications, such...
    Pantelis G. Bagos, Theodore D. Liakopoulos, Stavro...
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    BMCBI
    2006
    117views more  BMCBI 2006»
    Incorporating background frequency improves entropy-based residue conservation measures
    13 years 8 months ago
    Incorporating background frequency improves entropy-based residue conservation measures
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    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
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    ICPP
    2006
    IEEE
    100views Distributed And Parallel Com...» more  ICPP 2006»
    Salsa: Scalable Asynchronous Replica Exchange for Parallel Molecular Dynamics Applications
    14 years 1 months ago
    Salsa: Scalable Asynchronous Replica Exchange for Parallel Molecular Dynamics Applications
    Download  nsfcac.rutgers.edu
    — This paper presents Salsa, a novel, decentralized and asynchronous realization of the “replica exchange” algorithm for simulating the structure, function, folding, and dyna...
    Li Zhang, Manish Parashar, Emilio Gallicchio, Rona...
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    BMCBI
    2007
    143views more  BMCBI 2007»
    An adaptive bin framework search method for a beta-sheet protein homopolymer model
    13 years 8 months ago
    An adaptive bin framework search method for a beta-sheet protein homopolymer model
    Download  www.biomedcentral.com
    Background: The problem of protein structure prediction consists of predicting the functional or native structure of a protein given its linear sequence of amino acids. This probl...
    Alena Shmygelska, Holger H. Hoos
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