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BMCBI
2004
77views more  BMCBI 2004»
14 years 9 months ago
A structural study for the optimisation of functional motifs encoded in protein sequences
Background: A large number of PROSITE patterns select false positives and/or miss known true positives. It is possible that
Allegra Via, Manuela Helmer-Citterich
BMCBI
2005
123views more  BMCBI 2005»
14 years 9 months ago
PSI-BLAST-ISS: an intermediate sequence search tool for estimation of the position-specific alignment reliability
Background: Protein sequence alignments have become indispensable for virtually any evolutionary, structural or functional study involving proteins. Modern sequence search and com...
Mindaugas Margelevicius, Ceslovas Venclovas
BMCBI
2006
116views more  BMCBI 2006»
14 years 9 months ago
TaxMan: a taxonomic database manager
Background: Phylogenetic analysis of large, multiple-gene datasets, assembled from public sequence databases, is rapidly becoming a popular way to approach difficult phylogenetic ...
Martin Jones, Mark Blaxter
BMCBI
2010
139views more  BMCBI 2010»
14 years 9 months ago
A global optimization algorithm for protein surface alignment
Background: A relevant problem in drug design is the comparison and recognition of protein binding sites. Binding sites recognition is generally based on geometry often combined w...
Paola Bertolazzi, Concettina Guerra, Giampaolo Liu...
BMCBI
2010
177views more  BMCBI 2010»
14 years 9 months ago
Clustering of protein families into functional subtypes using Relative Complexity Measure with reduced amino acid alphabets
Background: Phylogenetic analysis can be used to divide a protein family into subfamilies in the absence of experimental information. Most phylogenetic analysis methods utilize mu...
Aydin Albayrak, Hasan H. Otu, Ugur O. Sezerman