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    » A Methodology for Comparative Functional Genomics
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    BMCBI
    2007
    146views more  BMCBI 2007»
    Bayesian hierarchical model for transcriptional module discovery by jointly modeling gene expression and ChIP-chip data
    14 years 9 months ago
    Bayesian hierarchical model for transcriptional module discovery by jointly modeling gene expression and ChIP-chip data
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    Background: Transcriptional modules (TM) consist of groups of co-regulated genes and transcription factors (TF) regulating their expression. Two high-throughput (HT) experimental ...
    Xiangdong Liu, Walter J. Jessen, Siva Sivaganesan,...
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    BMCBI
    2008
    128views more  BMCBI 2008»
    Finding sequence motifs with Bayesian models incorporating positional information: an application to transcription factor bindin
    14 years 9 months ago
    Finding sequence motifs with Bayesian models incorporating positional information: an application to transcription factor bindin
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    Background: Biologically active sequence motifs often have positional preferences with respect to a genomic landmark. For example, many known transcription factor binding sites (T...
    Nak-Kyeong Kim, Kannan Tharakaraman, Leonardo Mari...
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    BMCBI
    2010
    208views more  BMCBI 2010»
    Calculation of accurate small angle X-ray scattering curves from coarse-grained protein models
    14 years 9 months ago
    Calculation of accurate small angle X-ray scattering curves from coarse-grained protein models
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    Background: Genome sequencing projects have expanded the gap between the amount of known protein sequences and structures. The limitations of current high resolution structure det...
    Kasper Stovgaard, Christian Andreetta, Jesper Ferk...
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    BMCBI
    2007
    233views more  BMCBI 2007»
    160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA)
    14 years 9 months ago
    160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA)
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    Background: To infer homology and subsequently gene function, the Smith-Waterman (SW) algorithm is used to find the optimal local alignment between two sequences. When searching s...
    Isaac T. S. Li, Warren Shum, Kevin Truong
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    BMCBI
    2007
    146views more  BMCBI 2007»
    PubMed related articles: a probabilistic topic-based model for content similarity
    14 years 9 months ago
    PubMed related articles: a probabilistic topic-based model for content similarity
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    Background: We present a probabilistic topic-based model for content similarity called pmra that underlies the related article search feature in PubMed. Whether or not a document ...
    Jimmy J. Lin, W. John Wilbur
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