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» On Computing Functions with Uncertainty
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BMCBI
2007
233views more  BMCBI 2007»
15 years 7 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
2008
164views more  BMCBI 2008»
15 years 7 months ago
Word correlation matrices for protein sequence analysis and remote homology detection
Background: Classification of protein sequences is a central problem in computational biology. Currently, among computational methods discriminative kernel-based approaches provid...
Thomas Lingner, Peter Meinicke
BMCBI
2007
142views more  BMCBI 2007»
15 years 7 months ago
SABERTOOTH: protein structural alignment based on a vectorial structure representation
Background: The task of computing highly accurate structural alignments of proteins in very short computation time is still challenging. This is partly due to the complexity of pr...
Florian Teichert, Ugo Bastolla, Markus Porto
BMCBI
2007
164views more  BMCBI 2007»
15 years 7 months ago
Comparison of probabilistic Boolean network and dynamic Bayesian network approaches for inferring gene regulatory networks
Background: The regulation of gene expression is achieved through gene regulatory networks (GRNs) in which collections of genes interact with one another and other substances in a...
Peng Li, Chaoyang Zhang, Edward J. Perkins, Ping G...
IGPL
2008
124views more  IGPL 2008»
15 years 6 months ago
The Ricean Objection: An Analogue of Rice's Theorem for First-order Theories
We propose here an extension of Rice's Theorem to first-order logic, proven by totally elementary means. If P is any property defined over the collection of all first-order t...
Igor Carboni Oliveira, Walter Alexandre Carnielli
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