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    TCBB
    2010
    114views more  TCBB 2010»
    Cache-Oblivious Dynamic Programming for Bioinformatics
    13 years 7 months ago
    Cache-Oblivious Dynamic Programming for Bioinformatics
    Download  www.cs.utexas.edu
    — We present efficient cache-oblivious algorithms for some well-studied string problems in bioinformatics including the longest common subsequence, global pairwise sequence alig...
    Rezaul Alam Chowdhury, Hai-son Le, Vijaya Ramachan...
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    BMCBI
    2008
    145views more  BMCBI 2008»
    Directed acyclic graph kernels for structural RNA analysis
    13 years 8 months ago
    Directed acyclic graph kernels for structural RNA analysis
    Download  www.biomedcentral.com
    Background: Recent discoveries of a large variety of important roles for non-coding RNAs (ncRNAs) have been reported by numerous researchers. In order to analyze ncRNAs by kernel ...
    Kengo Sato, Toutai Mituyama, Kiyoshi Asai, Yasubum...
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    BIBE
    2005
    IEEE
    121views Bioinformatics» more  BIBE 2005»
    RNA Pseudoknot Prediction Using Term Rewriting
    14 years 2 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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    JCB
    2007
    136views more  JCB 2007»
    A Structure-Based Flexible Search Method for Motifs in RNA
    13 years 8 months ago
    A Structure-Based Flexible Search Method for Motifs in RNA
    Download  www.cs.bgu.ac.il
    The discovery of non-coding RNA (ncRNA) motifs and their role in regulating gene expression has recently attracted considerable attention. The goal is to discover these motifs in ...
    Isana Veksler-Lublinsky, Michal Ziv-Ukelson, Danny...
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    BIBE
    2007
    IEEE
    138views Bioinformatics» more  BIBE 2007»
    A Flexible Stem-Based Local Search Algorithm for Predicting RNA Secondary Structures Including Pseudoknots
    14 years 2 months ago
    A Flexible Stem-Based Local Search Algorithm for Predicting RNA Secondary Structures Including Pseudoknots
    Download  www.jdl.ac.cn
    -We demonstrate a new algorithm named FlexStem to predict RNA secondary structures with pseudoknots. Our approach is based on the free energy minimization criterion, and utilizes a...
    Xiang Chen, Simin He, Dongbo Bu, Runsheng Chen, We...
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