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» Gene Sequence Alignment on a Public Computing Platform
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BIBE
2006
IEEE
119views Bioinformatics» more  BIBE 2006»
14 years 1 months ago
Large Grain Size Stochastic Optimization Alignment
DNA sequence alignment is a critical step in identifying homology between organisms. The most widely used alignment program, ClustalW, is known to suffer from the local minima pro...
Perry Ridge, Hyrum Carroll, Dan Sneddon, Mark J. C...
BMCBI
2008
163views more  BMCBI 2008»
13 years 7 months ago
ProfileGrids as a new visual representation of large multiple sequence alignments: a case study of the RecA protein family
Background: Multiple sequence alignments are a fundamental tool for the comparative analysis of proteins and nucleic acids. However, large data sets are no longer manageable for v...
Alberto I. Roca, Albert E. Almada, Aaron C. Abajia...
BMCBI
2008
187views more  BMCBI 2008»
13 years 7 months ago
PSAT: A web tool to compare genomic neighborhoods of multiple prokaryotic genomes
Background: The conservation of gene order among prokaryotic genomes can provide valuable insight into gene function, protein interactions, or events by which genomes have evolved...
Christine Fong, Laurence Rohmer, Matthew Radey, Mi...
CSB
2002
IEEE
121views Bioinformatics» more  CSB 2002»
14 years 21 days ago
Fast and Sensitive Algorithm for Aligning ESTs to Human Genome
There is a pressing need to align growing set of expressed sequence tags (ESTs) to newly sequenced human genome. The problem is, however, complicated by the exon/intron structure ...
Jun Ogasawara, Shinichi Morishita
RECOMB
2004
Springer
14 years 8 months ago
Multiple organism gene finding by collapsed gibbs sampling
The Gibbs sampling method has been widely used for sequence analysis after it was successfully applied to the problem of identifying regulatory motif sequences upstream of genes. ...
Sourav Chatterji, Lior Pachter