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BMCBI
2005
104views more  BMCBI 2005»
13 years 4 months ago
Scoring functions for transcription factor binding site prediction
Background: Transcription factor binding site (TFBS) prediction is a difficult problem, which requires a good scoring function to discriminate between real binding sites and backg...
Markus T. Friberg, Peter von Rohr, Gaston H. Gonne...
BMCBI
2007
190views more  BMCBI 2007»
13 years 4 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
90views more  BMCBI 2008»
13 years 4 months ago
Genome-scale study of the importance of binding site context for transcription factor binding and gene regulation
Background: The rate of mRNA transcription is controlled by transcription factors that bind to specific DNA motifs in promoter regions upstream of protein coding genes. Recent res...
Jakub Orzechowski Westholm, Feifei Xu, Hans Ronne,...
RECOMB
2008
Springer
14 years 5 months ago
A Fast, Alignment-Free, Conservation-Based Method for Transcription Factor Binding Site Discovery
As an increasing number of eukaryotic genomes are being sequenced, comparative studies aimed at detecting regulatory elements in intergenic sequences are becoming more prevalent. M...
Raluca Gordân, Leelavati Narlikar, Alexander...
BMCBI
2010
113views more  BMCBI 2010»
13 years 4 months ago
Unifying generative and discriminative learning principles
Background: The recognition of functional binding sites in genomic DNA remains one of the fundamental challenges of genome research. During the last decades, a plethora of differe...
Jens Keilwagen, Jan Grau, Stefan Posch, Marc Stric...