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» Large Scale Matching for Position Weight Matrices
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CPM
2006
Springer
137views Combinatorics» more  CPM 2006»
13 years 9 months ago
Large Scale Matching for Position Weight Matrices
Aude Liefooghe, Hélène Touzet, Jean-...
BMCBI
2006
129views more  BMCBI 2006»
13 years 5 months ago
Fast index based algorithms and software for matching position specific scoring matrices
Background: In biological sequence analysis, position specific scoring matrices (PSSMs) are widely used to represent sequence motifs in nucleotide as well as amino acid sequences....
Michael Beckstette, Robert Homann, Robert Giegeric...
GCB
2004
Springer
223views Biometrics» more  GCB 2004»
13 years 9 months ago
PoSSuMsearch: Fast and Sensitive Matching of Position Specific Scoring Matrices using Enhanced Suffix Arrays
: In biological sequence analysis, position specific scoring matrices (PSSMs) are widely used to represent sequence motifs. In this paper, we present a new nonheuristic algorithm, ...
Michael Beckstette, Dirk Strothmann, Robert Homann...
WICSA
2008
13 years 7 months ago
Analyzing the Evolution of Large-Scale Software Systems Using Design Structure Matrices and Design Rule Theory: Two Exploratory
Software modularization activities remain without the guidance of formal theories and models. According to Baldwin and Clark's [1] design rule theory (DRT) , modular architec...
Matthew J. LaMantia, Yuanfang Cai, Alan MacCormack...
BMCBI
2005
94views more  BMCBI 2005»
13 years 5 months ago
Measuring similarities between transcription factor binding sites
Background: Collections of transcription factor binding profiles (Transfac, Jaspar) are essential to identify regulatory elements in DNA sequences. Subsets of highly similar profi...
Szymon M. Kielbasa, Didier Gonze, Hanspeter Herzel