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BMCBI
2007
146views more  BMCBI 2007»
15 years 4 months ago
Bayesian hierarchical model for transcriptional module discovery by jointly modeling gene expression and ChIP-chip data
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,...
BMCBI
2010
50views more  BMCBI 2010»
15 years 4 months ago
Scanner calibration revisited
Background: Calibration of a microarray scanner is critical for accurate interpretation of microarray results. Shi et al. (BMC Bioinformatics, 2005, 6, Art. No. S11 Suppl. 2.) rep...
Alexander E. Pozhitkov
BMCBI
2008
178views more  BMCBI 2008»
15 years 4 months ago
Identification of coherent patterns in gene expression data using an efficient biclustering algorithm and parallel coordinate vi
Background: The DNA microarray technology allows the measurement of expression levels of thousands of genes under tens/hundreds of different conditions. In microarray data, genes ...
Kin-On Cheng, Ngai-Fong Law, Wan-Chi Siu, Alan Wee...
BMCBI
2007
120views more  BMCBI 2007»
15 years 4 months ago
Phylo-mLogo: an interactive and hierarchical multiple-logo visualization tool for alignment of many sequences
Background: When aligning several hundreds or thousands of sequences, such as epidemic virus sequences or homologous/orthologous sequences of some big gene families, to reconstruc...
Arthur Chun-Chieh Shih, D. T. Lee, Chin-Lin Peng, ...
BMCBI
2007
147views more  BMCBI 2007»
15 years 4 months ago
Predicting combinatorial binding of transcription factors to regulatory elements in the human genome by association rule mining
Background: Cis-acting transcriptional regulatory elements in mammalian genomes typically contain specific combinations of binding sites for various transcription factors. Althoug...
Xochitl C. Morgan, Shulin Ni, Daniel P. Miranker, ...