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BCB
2010
156views Bioinformatics» more  BCB 2010»
9 years 1 months ago
Accelerating HMMER on GPUs by implementing hybrid data and task parallelism
Many biologically motivated problems are expressed as dynamic programming recurrences and are difficult to parallelize due to the intrinsic data dependencies in their algorithms. ...
Narayan Ganesan, Roger D. Chamberlain, Jeremy Buhl...
BCB
2010
126views Bioinformatics» more  BCB 2010»
9 years 1 months ago
Functional similarities of reaction sets in metabolic pathways
Analyzing metabolic pathways by means of their steady states has proven to be accurate and efficient for practical purposes. The models such as elementary flux modes (EFMs) and ex...
Ferhat Ay, Tamer Kahveci
BCB
2010
125views Bioinformatics» more  BCB 2010»
9 years 1 months ago
Protein structure alignment using elastic shape analysis
In this paper we present a method for flexible protein structure alignment based on elastic shape analysis of backbones, in a manner that can incorporate different characteristics...
Wei Liu, Anuj Srivastava, Jinfeng Zhang
BIOCOMP
2010
9 years 3 months ago
Using the Genetic Code Wisdom for Recognizing Protein Coding Sequences
We have elaborated a new method of recognizing protein coding sequences in genomic sequences. The method is exploiting a specific way of genetic code degeneration and relations bet...
Pawel Blazej, Pawel Mackiewicz, Stanislaw Cebrat
BIOCOMP
2010
9 years 3 months ago
A Network-based Approach to Classify Disease Stages of Prostate Cancer Using Quantitative Network Measures
Abstract-- This study deals with investigating the classification performance of information-theoretic measures when applied to complex biological networks. In particular, our aim ...
Laurin A. J. Mueller, Karl G. Kugler, Andreas Dand...
BIBE
2010
IEEE
194views Bioinformatics» more  BIBE 2010»
9 years 3 months ago
Improved Immune Genetic Algorithm for Clustering Protein-Protein Interaction Network
Hamid Ravaee, Ali Masoudi-Nejad, Saeed Omidi, Ali ...
BIOINFORMATICS
2010
100views more  BIOINFORMATICS 2010»
9 years 4 months ago
iMAT: an integrative metabolic analysis tool
Hadas Zur, Eytan Ruppin, Tomer Shlomi
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