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    BMCBI
    2008
    126views more  BMCBI 2008»
    c-REDUCE: Incorporating sequence conservation to detect motifs that correlate with expression
    13 years 8 months ago
    c-REDUCE: Incorporating sequence conservation to detect motifs that correlate with expression
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    Background: Computational methods for characterizing novel transcription factor binding sites search for sequence patterns or "motifs" that appear repeatedly in genomic ...
    Katerina Kechris, Hao Li
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    BMCBI
    2008
    149views more  BMCBI 2008»
    Evolution of biological sequences implies an extreme value distribution of type I for both global and local pairwise alignment s
    13 years 8 months ago
    Evolution of biological sequences implies an extreme value distribution of type I for both global and local pairwise alignment s
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    Background: Confidence in pairwise alignments of biological sequences, obtained by various methods such as Blast or Smith-Waterman, is critical for automatic analyses of genomic d...
    Olivier Bastien, Eric Maréchal
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    BMCBI
    2008
    211views more  BMCBI 2008»
    CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment
    13 years 8 months ago
    CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment
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    Background: Searching for similarities in protein and DNA databases has become a routine procedure in Molecular Biology. The Smith-Waterman algorithm has been available for more t...
    Svetlin Manavski, Giorgio Valle
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    BMCBI
    2008
    142views more  BMCBI 2008»
    Genetic weighted k-means algorithm for clustering large-scale gene expression data
    13 years 8 months ago
    Genetic weighted k-means algorithm for clustering large-scale gene expression data
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    Background: The traditional (unweighted) k-means is one of the most popular clustering methods for analyzing gene expression data. However, it suffers three major shortcomings. It...
    Fang-Xiang Wu
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    BMCBI
    2008
    242views more  BMCBI 2008»
    annot8r: GO, EC and KEGG annotation of EST datasets
    13 years 8 months ago
    annot8r: GO, EC and KEGG annotation of EST datasets
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    Background: The expressed sequence tag (EST) methodology is an attractive option for the generation of sequence data for species for which no completely sequenced genome is availa...
    Ralf Schmid, Mark L. Blaxter
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