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BMCBI
2004
75views more  BMCBI 2004»
14 years 10 months ago
Structural characterization of genomes by large scale sequence-structure threading
Background: Using sequence-structure threading we have conducted structural characterization of complete proteomes of 37 archaeal, bacterial and eukaryotic organisms (including wo...
Artem Cherkasov, Steven J. M. Jones
BMCBI
2005
198views more  BMCBI 2005»
14 years 10 months ago
Clustering protein sequences with a novel metric transformed from sequence similarity scores and sequence alignments with neural
Background: The sequencing of the human genome has enabled us to access a comprehensive list of genes (both experimental and predicted) for further analysis. While a majority of t...
Qicheng Ma, Gung-Wei Chirn, Richard Cai, Joseph D....
BMCBI
2007
129views more  BMCBI 2007»
14 years 10 months ago
Integrated network reconstruction, visualization and analysis using YANAsquare
Background: Modeling of metabolic networks includes tasks such as network assembly, network overview, calculation of metabolic fluxes and testing the robustness of the network. Re...
Roland Schwarz, Chunguang Liang, Christoph Kaleta,...
BMCBI
2010
124views more  BMCBI 2010»
14 years 10 months ago
Comparative analysis of acute and chronic corticosteroid pharmacogenomic effects in rat liver: Transcriptional dynamics and regu
Background: Comprehensively understanding corticosteroid pharmacogenomic effects is an essential step towards an insight into the underlying molecular mechanisms for both benefici...
Tung T. Nguyen, Richard R. Almon, Debra C. DuBois,...
BMCBI
2008
179views more  BMCBI 2008»
14 years 10 months ago
Building pathway clusters from Random Forests classification using class votes
Background: Recent years have seen the development of various pathway-based methods for the analysis of microarray gene expression data. These approaches have the potential to bri...
Herbert Pang, Hongyu Zhao