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BMCBI
2010
137views more  BMCBI 2010»
13 years 7 months ago
Improving pairwise sequence alignment accuracy using near-optimal protein sequence alignments
Background: While the pairwise alignments produced by sequence similarity searches are a powerful tool for identifying homologous proteins - proteins that share a common ancestor ...
Michael L. Sierk, Michael E. Smoot, Ellen J. Bass,...
NAR
2002
105views more  NAR 2002»
13 years 7 months ago
AraC-XylS database: a family of positive transcriptional regulators in bacteria
The AraC-XylS database contains information about a family of positive transcriptional regulators broadly distributed in bacteria. This specific database focuses on protein sequen...
Raquel Tobes, Juan L. Ramos
RECOMB
2003
Springer
14 years 7 months ago
Accurate detection of very sparse sequence motifs
Protein sequence alignments are more reliable the shorter the evolutionary distance. Here, we align distantly related proteins using many closely spaced intermediate sequences as ...
Andreas Heger, Michael Lappe, Liisa Holm
NAR
2008
101views more  NAR 2008»
13 years 6 months ago
RNALogo: a new approach to display structural RNA alignment
Regulatory RNAs play essential roles in many essential biological processes, ranging from gene regulation to protein synthesis. This work presents a web-based tool, RNALogo, to cr...
Tzu-Hao Chang, Jorng-Tzong Horng, Hsien-Da Huang
NAR
2006
61views more  NAR 2006»
13 years 7 months ago
MAVL/StickWRLD: analyzing structural constraints using interpositional dependencies in biomolecular sequence alignments
The increasing availability of structurally aligned protein families has made it possible to use statistical methods to discover regions of interpositional dependenciesof residue ...
Hatice Gulcin Ozer, William C. Ray