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BMCBI
2008
145views more  BMCBI 2008»
13 years 7 months ago
The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction
Background: Amino acids responsible for structure, core function or specificity may be inferred from multiple protein sequence alignments where a limited set of residue types are ...
Jonathan R. Manning, Emily R. Jefferson, Geoffrey ...
SSDBM
2006
IEEE
163views Database» more  SSDBM 2006»
14 years 1 months ago
ACache: Using Caching to Improve the Performance of Multiple Sequence Alignments
Multiple sequence alignment represents a class of powerful bioinformatics tools with many uses in computational biology ranging from discovery of characteristic motifs and conserv...
Xun Tu, Kajal T. Claypool, Cindy X. Chen
NAR
2007
90views more  NAR 2007»
13 years 7 months ago
The SUPERFAMILY database in 2007: families and functions
The SUPERFAMILY database provides protein domain assignments, at the SCOP ‘superfamily’ level, for the predicted protein sequences in over 400 completed genomes. A superfamily...
Derek Wilson, Martin Madera, Christine Vogel, Cyru...
ISBRA
2007
Springer
14 years 1 months ago
Delta: A Toolset for the Structural Analysis of Biological Sequences on a 3D Triangular Lattice
Abstract. The lattice approach to biological structural analysis was made popular by the HP model for protein folding, but had not been used previously for RNA secondary structure ...
Minghui Jiang, Martin Mayne, Joel Gillespie
BMCBI
2008
106views more  BMCBI 2008»
13 years 7 months ago
Searching for evolutionary distant RNA homologs within genomic sequences using partition function posterior probabilities
Background: Identification of RNA homologs within genomic stretches is difficult when pairwise sequence identity is low or unalignable flanking residues are present. In both cases...
Usman Roshan, Satish Chikkagoudar, Dennis R. Lives...