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BMCBI
2011
14 years 4 months ago
Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
Background: Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for seque...
Jacek Blazewicz, Wojciech Frohmberg, Michal Kierzy...
BMCBI
2011
14 years 4 months ago
Structator: fast index-based search for RNA sequence-structure patterns
Background: The secondary structure of RNA molecules is intimately related to their function and often more conserved than the sequence. Hence, the important task of searching dat...
Fernando Meyer, Stefan Kurtz, Rolf Backofen, Sebas...
BMCBI
2011
14 years 4 months ago
Extracting scientific articles from a large digital archive: BioStor and the Biodiversity Heritage Library
Background: The Biodiversity Heritage Library (BHL) is a large digital archive of legacy biological literature, comprising over 31 million pages scanned from books, monographs, an...
Roderic D. M. Page
126
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BMCBI
2011
14 years 4 months ago
Binding Site Prediction for Protein-Protein Interactions and Novel Motif Discovery using Re-occurring Polypeptide Sequences
Background: While there are many methods for predicting protein-protein interaction, very few can determine the specific site of interaction on each protein. Characterization of t...
Adam Amos-Binks, Catalin Patulea, Sylvain Pitre, A...
137
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BMCBI
2011
14 years 4 months ago
Evaluating methods for ranking differentially expressed genes applied to MicroArray Quality Control data
Background: Statistical methods for ranking differentially expressed genes (DEGs) from gene expression data should be evaluated with regard to high sensitivity, specificity, and r...
Koji Kadota, Kentaro Shimizu