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BIODATAMINING
2008
178views more  BIODATAMINING 2008»
13 years 10 months ago
Clustering-based approaches to SAGE data mining
Serial analysis of gene expression (SAGE) is one of the most powerful tools for global gene expression profiling. It has led to several biological discoveries and biomedical appli...
Haiying Wang, Huiru Zheng, Francisco Azuaje
BMCBI
2010
125views more  BMCBI 2010»
13 years 10 months ago
NeatMap - non-clustering heat map alternatives in R
Background: The clustered heat map is the most popular means of visualizing genomic data. It compactly displays a large amount of data in an intuitive format that facilitates the ...
Satwik Rajaram, Yoshi Oono
BMCBI
2010
153views more  BMCBI 2010»
13 years 10 months ago
Starr: Simple Tiling ARRay analysis of Affymetrix ChIP-chip data
Background: Chromatin immunoprecipitation combined with DNA microarrays (ChIP-chip) is an assay used for investigating DNA-protein-binding or post-translational chromatin/histone ...
Benedikt Zacher, Pei Fen Kuan, Achim Tresch
BMCBI
2008
155views more  BMCBI 2008»
13 years 10 months ago
Prediction of regulatory elements in mammalian genomes using chromatin signatures
Background: Recent genomic scale survey of epigenetic states in the mammalian genomes has shown that promoters and enhancers are correlated with distinct chromatin signatures, pro...
Kyoung-Jae Won, Iouri Chepelev, Bing Ren, Wei Wang
BMCBI
2007
104views more  BMCBI 2007»
13 years 10 months ago
Comparative evaluation of gene-set analysis methods
Background: Multiple data-analytic methods have been proposed for evaluating gene-expression levels in specific biological pathways, assessing differential expression associated w...
Qi Liu, Irina Dinu, Adeniyi J. Adewale, John D. Po...