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» Detecting Motifs from Sequences
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BMCBI
2007
145views more  BMCBI 2007»
14 years 9 months ago
Improved benchmarks for computational motif discovery
Background: An important step in annotation of sequenced genomes is the identification of transcription factor binding sites. More than a hundred different computational methods h...
Geir Kjetil Sandve, Osman Abul, Vegard Walseng, Fi...
BMCBI
2011
14 years 4 months ago
A discriminative method for family-based protein remote homology detection that combines inductive logic programming and proposi
Background: Remote homology detection is a hard computational problem. Most approaches have trained computational models by using either full protein sequences or multiple sequenc...
Juliana S. Bernardes, Alessandra Carbone, Gerson Z...
WABI
2009
Springer
15 years 4 months ago
MADMX: A Novel Strategy for Maximal Dense Motif Extraction
We develop, analyze and experiment with a new tool, called madmx, which extracts frequent motifs, possibly including don’t care characters, from biological sequences. We introduc...
Roberto Grossi, Andrea Pietracaprina, Nadia Pisant...
BMCBI
2005
106views more  BMCBI 2005»
14 years 9 months ago
A multistep bioinformatic approach detects putative regulatory elements in gene promoters
Background: Searching for approximate patterns in large promoter sequences frequently produces an exceedingly high numbers of results. Our aim was to exploit biological knowledge ...
Stefania Bortoluzzi, Alessandro Coppe, Andrea Biso...
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RECOMB
2004
Springer
15 years 10 months ago
Multiple organism gene finding by collapsed gibbs sampling
The Gibbs sampling method has been widely used for sequence analysis after it was successfully applied to the problem of identifying regulatory motif sequences upstream of genes. ...
Sourav Chatterji, Lior Pachter