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» MEME: discovering and analyzing DNA and protein sequence mot...
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BIBE
2009
IEEE
126views Bioinformatics» more  BIBE 2009»
14 years 3 months ago
Mining Positional Association Super-Rules on Fixed-Size Protein Sequence Motifs
— Protein sequence motifs information is crucial to the analysis of biologically significant regions. The conserved regions have the potential to determine the role of the protei...
Bernard Chen, Sinan Kockara
BMCBI
2006
145views more  BMCBI 2006»
13 years 8 months ago
Fast-Find: A novel computational approach to analyzing combinatorial motifs
Background: Many vital biological processes, including transcription and splicing, require a combination of short, degenerate sequence patterns, or motifs, adjacent to defined seq...
Micah Hamady, Erin Peden, Rob Knight, Ravinder Sin...
PSB
2004
13 years 10 months ago
Motif Discovery in Heterogeneous Sequence Data
This paper introduces the first integrated algorithm designed to discover novel motifs in heterogeneous sequence data, which is comprised of coregulated genes from a single genome...
Amol Prakash, Mathieu Blanchette, Saurabh Sinha, M...
RECOMB
2003
Springer
14 years 8 months ago
Modeling dependencies in protein-DNA binding sites
The availability of whole genome sequences and high-throughput genomic assays opens the door for in silico analysis of transcription regulation. This includes methods for discover...
Yoseph Barash, Gal Elidan, Nir Friedman, Tommy Kap...
BMCBI
2006
110views more  BMCBI 2006»
13 years 8 months ago
Design of a combinatorial DNA microarray for protein-DNA interaction studies
Background: Discovery of precise specificity of transcription factors is an important step on the way to understanding the complex mechanisms of gene regulation in eukaryotes. Rec...
Julian Mintseris, Michael B. Eisen