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    BMCBI
    2010
    129views more  BMCBI 2010»
    Geoseq: a tool for dissecting deep-sequencing datasets
    13 years 7 months ago
    Geoseq: a tool for dissecting deep-sequencing datasets
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    Background: Datasets generated on deep-sequencing platforms have been deposited in various public repositories such as the Gene Expression Omnibus (GEO), Sequence Read Archive (SR...
    James Gurtowski, Anthony Cancio, Hardik Shah, Chay...
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    BMCBI
    2008
    202views more  BMCBI 2008»
    Network motif-based identification of transcription factor-target gene relationships by integrating multi-source biological data
    13 years 7 months ago
    Network motif-based identification of transcription factor-target gene relationships by integrating multi-source biological data
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    Background: Integrating data from multiple global assays and curated databases is essential to understand the spatiotemporal interactions within cells. Different experiments measu...
    Yuji Zhang, Jianhua Xuan, Benildo de los Reyes, Ro...
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    BMCBI
    2010
    142views more  BMCBI 2010»
    pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
    13 years 7 months ago
    pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
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    Background: Likelihood-based phylogenetic inference is generally considered to be the most reliable classification method for unknown sequences. However, traditional likelihood-ba...
    Frederick A. Matsen III, Robin B. Kodner, E. Virgi...
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    BMCBI
    2007
    135views more  BMCBI 2007»
    DAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput
    13 years 7 months ago
    DAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput
    Download  www.biomedcentral.com
    Background: Due to the complex and distributed nature of biological research, our current biological knowledge is spread over many redundant annotation databases maintained by man...
    Brad T. Sherman, Da Wei Huang, Qina Tan, Yongjian ...
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    BMCBI
    2008
    121views more  BMCBI 2008»
    ReAlignerV: Web-based genomic alignment tool with high specificity and robustness estimated by species-specific insertion sequen
    13 years 7 months ago
    ReAlignerV: Web-based genomic alignment tool with high specificity and robustness estimated by species-specific insertion sequen
    Download  www.biomedcentral.com
    Background: Detecting conserved noncoding sequences (CNSs) across species highlights the functional elements. Alignment procedures combined with computational prediction of transc...
    Hisakazu Iwama, Yukio Hori, Kensuke Matsumoto, Koj...
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