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» Directionality in protein fold prediction
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81
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BIOINFORMATICS
2006
124views more  BIOINFORMATICS 2006»
14 years 9 months ago
Helix Interaction Tool (HIT): a web-based tool for analysis of helix-helix interactions in proteins
Motivation: In many proteins, helix-helix interactions can be critical to establishing protein conformation (folding) and dynamics, as well as determining associations between pro...
Anne E. Counterman Burba, Ursula Lehnert, Eric Z. ...
BMCBI
2007
233views more  BMCBI 2007»
14 years 9 months ago
160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA)
Background: To infer homology and subsequently gene function, the Smith-Waterman (SW) algorithm is used to find the optimal local alignment between two sequences. When searching s...
Isaac T. S. Li, Warren Shum, Kevin Truong
BMCBI
2007
143views more  BMCBI 2007»
14 years 9 months ago
An adaptive bin framework search method for a beta-sheet protein homopolymer model
Background: The problem of protein structure prediction consists of predicting the functional or native structure of a protein given its linear sequence of amino acids. This probl...
Alena Shmygelska, Holger H. Hoos
80
Voted
BMCBI
2006
165views more  BMCBI 2006»
14 years 9 months ago
Improving the quality of protein structure models by selecting from alignment alternatives
Background: In the area of protein structure prediction, recently a lot of effort has gone into the development of Model Quality Assessment Programs (MQAPs). MQAPs distinguish hig...
Ingolf Sommer, Stefano Toppo, Oliver Sander, Thoma...
BMCBI
2004
120views more  BMCBI 2004»
14 years 9 months ago
An approach to large scale identification of non-obvious structural similarities between proteins
Background: A new sequence independent bioinformatics approach allowing genome-wide search for proteins with similar three dimensional structures has been developed. By utilizing ...
Artem Cherkasov, Steven J. M. Jones