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    CSR
    2006
    Springer
    163views Theoretical Computer Science» more  CSR 2006»
    Fast Motif Search in Protein Sequence Databases
    14 years 7 days ago
    Fast Motif Search in Protein Sequence Databases
    Download  www.cs.uvm.edu
    Regular expression pattern matching is widely used in computational biology. Searching through a database of sequences for a motif (a simple regular expression), or its variations...
    Elena Zheleva, Abdullah N. Arslan
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    SC
    2003
    ACM
    105views Applied Computing» more  SC 2003»
    A Million-Fold Speed Improvement in Genomic Repeats Detection
    14 years 1 months ago
    A Million-Fold Speed Improvement in Genomic Repeats Detection
    Download  www.sc-conference.org
    This paper presents a novel, parallel algorithm for generating top alignments. Top alignments are used for finding internal repeats in biological sequences like proteins and gene...
    John W. Romein, Jaap Heringa, Henri E. Bal
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    BMCBI
    2008
    86views more  BMCBI 2008»
    Subfamily specific conservation profiles for proteins based on n-gram patterns
    13 years 8 months ago
    Subfamily specific conservation profiles for proteins based on n-gram patterns
    Download  www.biomedcentral.com
    Background: A new algorithm has been developed for generating conservation profiles that reflect the evolutionary history of the subfamily associated with a query sequence. It is ...
    John K. Vries, Xiong Liu
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    BMCBI
    2006
    137views more  BMCBI 2006»
    Sigma: multiple alignment of weakly-conserved non-coding DNA sequence
    13 years 8 months ago
    Sigma: multiple alignment of weakly-conserved non-coding DNA sequence
    Download  www.biomedcentral.com
    Background: Existing tools for multiple-sequence alignment focus on aligning protein sequence or protein-coding DNA sequence, and are often based on extensions to Needleman-Wunsch...
    Rahul Siddharthan
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    DAM
    2007
    91views more  DAM 2007»
    Integer linear programming approaches for non-unique probe selection
    13 years 8 months ago
    Integer linear programming approaches for non-unique probe selection
    Download  algorithmics.molgen.mpg.de
    In addition to their prevalent use for analyzing gene expression, DNA microarrays are an efficient tool for biological, medical, and industrial applications because of their abil...
    Gunnar W. Klau, Sven Rahmann, Alexander Schliep, M...
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