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    BMCBI
    2006
    120views more  BMCBI 2006»
    Integrating protein structures and precomputed genealogies in the Magnum database: Examples with cellular retinoid binding prote
    13 years 11 months ago
    Integrating protein structures and precomputed genealogies in the Magnum database: Examples with cellular retinoid binding prote
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    Background: When accurate models for the divergent evolution of protein sequences are integrated with complementary biological information, such as folded protein structures, anal...
    Michael E. Bradley, Steven A. Benner
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    BMCBI
    2006
    96views more  BMCBI 2006»
    Bayesian detection of periodic mRNA time profiles without use of training examples
    13 years 11 months ago
    Bayesian detection of periodic mRNA time profiles without use of training examples
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    Background: Detection of periodically expressed genes from microarray data without use of known periodic and non-periodic training examples is an important problem, e.g. for ident...
    Claes R. Andersson, Anders Isaksson, Mats G. Gusta...
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    BMCBI
    2006
    144views more  BMCBI 2006»
    Development and implementation of an algorithm for detection of protein complexes in large interaction networks
    13 years 11 months ago
    Development and implementation of an algorithm for detection of protein complexes in large interaction networks
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    Background: After complete sequencing of a number of genomes the focus has now turned to proteomics. Advanced proteomics technologies such as two-hybrid assay, mass spectrometry e...
    Md. Altaf-Ul-Amin, Yoko Shinbo, Kenji Mihara, Ken ...
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    BMCBI
    2006
    118views more  BMCBI 2006»
    Microarray image analysis: background estimation using quantile and morphological filters
    13 years 11 months ago
    Microarray image analysis: background estimation using quantile and morphological filters
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    Background: In a microarray experiment the difference in expression between genes on the same slide is up to 103 fold or more. At low expression, even a small error in the estimat...
    Anders Bengtsson, Henrik Bengtsson
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    BMCBI
    2006
    142views more  BMCBI 2006»
    PedGenie: an analysis approach for genetic association testing in extended pedigrees and genealogies of arbitrary size
    13 years 11 months ago
    PedGenie: an analysis approach for genetic association testing in extended pedigrees and genealogies of arbitrary size
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    Background: We present a general approach to perform association analyses in pedigrees of arbitrary size and structure, which also allows for a mixture of pedigree members and ind...
    Kristina Allen-Brady, Jathine Wong, Nicola J. Camp
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    BMCBI
    2006
    119views more  BMCBI 2006»
    Utilization of two sample t-test statistics from redundant probe sets to evaluate different probe set algorithms in GeneChip stu
    13 years 11 months ago
    Utilization of two sample t-test statistics from redundant probe sets to evaluate different probe set algorithms in GeneChip stu
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    Background: The choice of probe set algorithms for expression summary in a GeneChip study has a great impact on subsequent gene expression data analysis. Spiked-in cRNAs with know...
    Zihua Hu, Gail R. Willsky
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    BMCBI
    2006
    106views more  BMCBI 2006»
    Methodological study of affine transformations of gene expression data with proposed robust non-parametric multi-dimensional nor
    13 years 11 months ago
    Methodological study of affine transformations of gene expression data with proposed robust non-parametric multi-dimensional nor
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    Background: Low-level processing and normalization of microarray data are most important steps in microarray analysis, which have profound impact on downstream analysis. Multiple ...
    Henrik Bengtsson, Ola Hössjer
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    BMCBI
    2006
    131views more  BMCBI 2006»
    SIMAGE: simulation of DNA-microarray gene expression data
    13 years 11 months ago
    SIMAGE: simulation of DNA-microarray gene expression data
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    Background: Simulation of DNA-microarray data serves at least three purposes: (i) optimizing the design of an intended DNA microarray experiment, (ii) comparing existing pre-proce...
    Casper J. Albers, Ritsert C. Jansen, Jan Kok, Osca...
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    BMCBI
    2006
    111views more  BMCBI 2006»
    SIMMAP: Stochastic character mapping of discrete traits on phylogenies
    13 years 11 months ago
    SIMMAP: Stochastic character mapping of discrete traits on phylogenies
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    Background: Character mapping on phylogenies has played an important, if not critical role, in our understanding of molecular, morphological, and behavioral evolution. Until very ...
    Jonathan P. Bollback
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    BMCBI
    2006
    98views more  BMCBI 2006»
    In search of functional association from time-series microarray data based on the change trend and level of gene expression
    13 years 11 months ago
    In search of functional association from time-series microarray data based on the change trend and level of gene expression
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    Background: The increasing availability of time-series expression data opens up new possibilities to study functional linkages of genes. Present methods used to infer functional l...
    Feng He, An-Ping Zeng
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