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BMCBI
2007
95views more  BMCBI 2007»
15 years 5 months ago
Phylogenetic tree information aids supervised learning for predicting protein-protein interaction based on distance matrices
Background: Protein-protein interactions are critical for cellular functions. Recently developed computational approaches for predicting protein-protein interactions utilize co-ev...
Roger A. Craig, Li Liao
BMCBI
2008
118views more  BMCBI 2008»
15 years 5 months ago
Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution
Background: The detection of conserved motifs in promoters of orthologous genes (phylogenetic footprints) has become a common strategy to predict cis-acting regulatory elements. S...
Rekin's Janky, Jacques van Helden
149
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BMCBI
2008
117views more  BMCBI 2008»
15 years 5 months ago
A probabilistic framework to predict protein function from interaction data integrated with semantic knowledge
Background: The functional characterization of newly discovered proteins has been a challenge in the post-genomic era. Protein-protein interactions provide insights into the funct...
Young-Rae Cho, Lei Shi, Murali Ramanathan, Aidong ...
152
Voted
BMCBI
2008
101views more  BMCBI 2008»
15 years 5 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...
147
Voted
BMCBI
2008
110views more  BMCBI 2008»
15 years 5 months ago
Predikin and PredikinDB: a computational framework for the prediction of protein kinase peptide specificity and an associated da
Background: We have previously described an approach to predicting the substrate specificity of serine-threonine protein kinases. The method, named Predikin, identifies key conser...
Neil F. W. Saunders, Ross I. Brinkworth, Thomas Hu...