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BMCBI
2008
123views more  BMCBI 2008»
15 years 6 months ago
PocketMatch: A new algorithm to compare binding sites in protein structures
Background: Recognizing similarities and deriving relationships among protein molecules is a fundamental requirement in present-day biology. Similarities can be present at various...
Kalidas Yeturu, Nagasuma Chandra
BMCBI
2007
129views more  BMCBI 2007»
15 years 6 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
2008
101views more  BMCBI 2008»
15 years 6 months ago
Reranking candidate gene models with cross-species comparison for improved gene prediction
Background: Most gene finders score candidate gene models with state-based methods, typically HMMs, by combining local properties (coding potential, splice donor and acceptor patt...
Qian Liu, Koby Crammer, Fernando C. N. Pereira, Da...
BMCBI
2008
112views more  BMCBI 2008»
15 years 6 months ago
A general modeling and visualization tool for comparing different members of a group: application to studying tau-mediated regul
Background: Innumerable biological investigations require comparing collections of molecules, cells or organisms to one another with respect to one or more of their properties. Al...
Arnab Bhattacharya, Sasha Levy, Adria LeBoeuf, Mic...
BMCBI
2007
134views more  BMCBI 2007»
15 years 6 months ago
Nearest Neighbor Networks: clustering expression data based on gene neighborhoods
Background: The availability of microarrays measuring thousands of genes simultaneously across hundreds of biological conditions represents an opportunity to understand both indiv...
Curtis Huttenhower, Avi I. Flamholz, Jessica N. La...
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