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BMCBI
2007
190views more  BMCBI 2007»
15 years 6 months ago
Discriminative motif discovery in DNA and protein sequences using the DEME algorithm
Background: Motif discovery aims to detect short, highly conserved patterns in a collection of unaligned DNA or protein sequences. Discriminative motif finding algorithms aim to i...
Emma Redhead, Timothy L. Bailey
BMCBI
2008
150views more  BMCBI 2008»
15 years 6 months ago
Natural Language Processing in aid of FlyBase curators
Background: Despite increasing interest in applying Natural Language Processing (NLP) to biomedical text, whether this technology can facilitate tasks such as database curation re...
Nikiforos Karamanis, Ruth Seal, Ian Lewin, Peter M...
CONSTRAINTS
2010
126views more  CONSTRAINTS 2010»
15 years 6 months ago
Lexicographically-ordered constraint satisfaction problems
Abstract. We describe a simple CSP formalism for handling multi-attribute preference problems with hard constraints, one that combines hard constraints and preferences so the two a...
Eugene C. Freuder, Robert Heffernan, Richard J. Wa...
ENGL
2008
78views more  ENGL 2008»
15 years 6 months ago
Threshold for Positional Weight Matrix
In biological sequence research, the positional weight matrix (PWM) is often used to search for putative transcription factor binding sites. A set of experimentally verified oligon...
Yunlian Pan, Sieu Phan
BMCBI
2006
112views more  BMCBI 2006»
15 years 6 months ago
A phylogenomic gene cluster resource: the Phylogenetically Inferred Groups (PhIGs) database
Background: We present here the PhIGs database, a phylogenomic resource for sequenced genomes. Although many methods exist for clustering gene families, very few attempt to create...
Paramvir S. Dehal, Jeffrey L. Boore