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» Subtle Motif Discovery for Detection of DNA Regulatory Sites
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CSB
2005
IEEE
168views Bioinformatics» more  CSB 2005»
13 years 11 months ago
cis-Regulatory Element Prediction in Mammalian Genomes
The identification of cis-regulatory elements and modules is an important step in understanding the regulation of genes. We have developed a pipeline capable of running multiple m...
Asim S. Siddiqui, Gordon Robertson, Misha Bilenky,...
ISAAC
2004
Springer
115views Algorithms» more  ISAAC 2004»
13 years 11 months ago
Randomized Algorithms for Motif Detection
Motivation: Motif detection for DNA sequences has many important applications in biological studies, e.g., locating binding sites and regulatory signals, and designing genetic prob...
Lusheng Wang, Liang Dong, Hui Fan
BMCBI
2010
152views more  BMCBI 2010»
13 years 5 months ago
FITBAR: a web tool for the robust prediction of prokaryotic regulons
Background: The binding of regulatory proteins to their specific DNA targets determines the accurate expression of the neighboring genes. The in silico prediction of new binding s...
Jacques Oberto
BMCBI
2010
167views more  BMCBI 2010»
13 years 5 months ago
Creating PWMs of transcription factors using 3D structure-based computation of protein-DNA free binding energies
Background: Knowledge of transcription factor-DNA binding patterns is crucial for understanding gene transcription. Numerous DNA-binding proteins are annotated as transcription fa...
Denitsa Alamanova, Philip Stegmaier, Alexander E. ...
ISMB
2000
13 years 7 months ago
Mining for Putative Regulatory Elements in the Yeast Genome Using Gene Expression Data
We have developed a set of methods and tools for automatic discovery of putative regulatory signals in genome sequences. The analysis pipeline consists of gene expression data clu...
Jaak Vilo, Alvis Brazma, Inge Jonassen, Alan J. Ro...