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    BMCBI
    2008
    169views more  BMCBI 2008»
    A comprehensive comparison of random forests and support vector machines for microarray-based cancer classification
    13 years 11 months ago
    A comprehensive comparison of random forests and support vector machines for microarray-based cancer classification
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    Background: Cancer diagnosis and clinical outcome prediction are among the most important emerging applications of gene expression microarray technology with several molecular sig...
    Alexander R. Statnikov, Lily Wang, Constantin F. A...
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    BMCBI
    2007
    156views more  BMCBI 2007»
    Large-scale clustering of CAGE tag expression data
    13 years 11 months ago
    Large-scale clustering of CAGE tag expression data
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    Background: Recent analyses have suggested that many genes possess multiple transcription start sites (TSSs) that are differentially utilized in different tissues and cell lines. ...
    Kazuro Shimokawa, Yuko Okamura-Oho, Takio Kurita, ...
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    BMCBI
    2008
    130views more  BMCBI 2008»
    Function approximation approach to the inference of reduced NGnet models of genetic networks
    13 years 11 months ago
    Function approximation approach to the inference of reduced NGnet models of genetic networks
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    Background: The inference of a genetic network is a problem in which mutual interactions among genes are deduced using time-series of gene expression patterns. While a number of m...
    Shuhei Kimura, Katsuki Sonoda, Soichiro Yamane, Hi...
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    BMCBI
    2008
    160views more  BMCBI 2008»
    A method for analyzing censored survival phenotype with gene expression data
    13 years 11 months ago
    A method for analyzing censored survival phenotype with gene expression data
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    Background: Survival time is an important clinical trait for many disease studies. Previous works have shown certain relationship between patients' gene expression profiles a...
    Tongtong Wu, Wei Sun, Shinsheng Yuan, Chun-Houh Ch...
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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 11 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
    2007
    112views more  BMCBI 2007»
    Integrated olfactory receptor and microarray gene expression databases
    13 years 11 months ago
    Integrated olfactory receptor and microarray gene expression databases
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    Background: Gene expression patterns of olfactory receptors (ORs) are an important component of the signal encoding mechanism in the olfactory system since they determine the inte...
    Nian Liu, Chiquito J. Crasto, Minghong Ma
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    BMCBI
    2010
    109views more  BMCBI 2010»
    Application of machine learning methods to histone methylation ChIP-Seq data reveals H4R3me2 globally represses gene expression
    13 years 11 months ago
    Application of machine learning methods to histone methylation ChIP-Seq data reveals H4R3me2 globally represses gene expression
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    Background: In the last decade, biochemical studies have revealed that epigenetic modifications including histone modifications, histone variants and DNA methylation form a comple...
    Xiaojiang Xu, Stephen Hoang, Marty W. Mayo, Stefan...
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    BMCBI
    2008
    125views more  BMCBI 2008»
    MAID : An effect size based model for microarray data integration across laboratories and platforms
    13 years 11 months ago
    MAID : An effect size based model for microarray data integration across laboratories and platforms
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    Background: Gene expression profiling has the potential to unravel molecular mechanisms behind gene regulation and identify gene targets for therapeutic interventions. As microarr...
    Ivan Borozan, Limin Chen, Bryan Paeper, Jenny E. H...
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    BMCBI
    2007
    129views more  BMCBI 2007»
    HoughFeature, a novel method for assessing drug effects in three-color cDNA microarray experiments
    13 years 11 months ago
    HoughFeature, a novel method for assessing drug effects in three-color cDNA microarray experiments
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    Background: Three-color microarray experiments can be performed to assess drug effects on the genomic scale. The methodology may be useful in shortening the cycle, reducing the co...
    Hongya Zhao, Hong Yan
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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
    13 years 11 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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