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» Efficient protein alignment algorithm for protein search
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90
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BMCBI
2010
116views more  BMCBI 2010»
14 years 11 months ago
A hybrid approach to protein folding problem integrating constraint programming with local search
Background: The protein folding problem remains one of the most challenging open problems in computational biology. Simplified models in terms of lattice structure and energy func...
Abu Zafer M. Dayem Ullah, Kathleen Steinhöfel
97
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WABI
2007
Springer
15 years 5 months ago
Topology Independent Protein Structural Alignment
Abstract. Protein structural alignment is an indispensable tool used for many different studies in bioinformatics. Most structural alignment algorithms assume that the structural ...
Joe Dundas, T. Andrew Binkowski, Bhaskar DasGupta,...
63
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INFORMATICALT
2010
70views more  INFORMATICALT 2010»
14 years 10 months ago
Treatment of Over-Saturated Protein Spots in Two-Dimensional Electrophoresis Gel Images
The paper addresses the over-saturated protein spot detection and extraction problem in two-dimensional electrophoresis gel images. The effective technique for detection and recons...
Arturas Serackis, Dalius Navakauskas
101
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BIBE
2005
IEEE
126views Bioinformatics» more  BIBE 2005»
15 years 5 months ago
Suboptimal Alignments Improve the Detection of Weak Homologs in Sequence Database Searches
PSI-BLAST remains one of the popular tools for searching remote homologs in sequence databases. We recently demonstrated that hybrid alignment can function as the alignment core f...
Yuheng Li, Mario Lauria, Ralf Bundschuh
91
Voted
BMCBI
2010
122views more  BMCBI 2010»
14 years 11 months ago
Fast and accurate protein substructure searching with simulated annealing and GPUs
Background: Searching a database of protein structures for matches to a query structure, or occurrences of a structural motif, is an important task in structural biology and bioin...
Alex Stivala, Peter J. Stuckey, Anthony Wirth