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» Boosting Relational Sequence Alignments
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BMCBI
2008
176views more  BMCBI 2008»
15 years 2 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
BMCBI
2007
126views more  BMCBI 2007»
15 years 1 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
2006
Springer
16 years 2 months ago
Phylogenetic Profiling of Insertions and Deletions in Vertebrate Genomes
Micro-indels are small insertion or deletion events (indels) that occur during genome evolution. The study of micro-indels is important, both in order to better understand the unde...
Sagi Snir, Lior Pachter
BIBM
2010
IEEE
144views Bioinformatics» more  BIBM 2010»
14 years 12 months ago
Identification and quantification of abundant species from pyrosequences of 16S rRNA by consensus alignment
16S rRNA gene profiling has recently been boosted by the development of pyrosequencing methods. A common analysis is to group pyrosequences into Operational Taxonomic Units (OTUs),...
Yuzhen Ye
ECML
2006
Springer
15 years 5 months ago
TildeCRF: Conditional Random Fields for Logical Sequences
Abstract. Conditional Random Fields (CRFs) provide a powerful instrument for labeling sequences. So far, however, CRFs have only been considered for labeling sequences over flat al...
Bernd Gutmann, Kristian Kersting