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» Multiple sequence alignment by quantum genetic algorithm
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BMCBI
2008
176views more  BMCBI 2008»
13 years 8 months ago
H2r: Identification of evolutionary important residues by means of an entropy based analysis of multiple sequence alignments
Background: A multiple sequence alignment (MSA) generated for a protein can be used to characterise residues by means of a statistical analysis of single columns. In addition to t...
Rainer Merkl, Matthias Zwick
ALMOB
2008
85views more  ALMOB 2008»
13 years 8 months ago
Noisy: Identification of problematic columns in multiple sequence alignments
Motivation: Sequence-based methods for phylogenetic reconstruction from (nucleic acid) sequence data are notoriously plagued by two effects: homoplasies and alignment errors. Larg...
Andreas W. M. Dress, Christoph Flamm, Guido Fritzs...
BMCBI
2007
126views more  BMCBI 2007»
13 years 8 months ago
Multiple non-collinear TF-map alignments of promoter regions
Background: The analysis of the promoter sequence of genes with similar expression patterns is a basic tool to annotate common regulatory elements. Multiple sequence alignments ar...
Enrique Blanco, Roderic Guigó, Xavier Messe...
RECOMB
2009
Springer
14 years 9 months ago
Learning Models for Aligning Protein Sequences with Predicted Secondary Structure
Accurately aligning distant protein sequences is notoriously difficult. A recent approach to improving alignment accuracy is to use additional information such as predicted seconda...
Eagu Kim, Travis J. Wheeler, John D. Kececioglu
BIBE
2006
IEEE
119views Bioinformatics» more  BIBE 2006»
14 years 2 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...