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BMCBI
2006
145views more  BMCBI 2006»
13 years 7 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...
IEEEPACT
2005
IEEE
14 years 1 months ago
Exploiting Coarse-Grained Parallelism to Accelerate Protein Motif Finding with a Network Processor
While general-purpose processors have only recently employed chip multiprocessor (CMP) architectures, network processors (NPs) have used heterogeneous multi-core architectures sin...
Ben Wun, Jeremy Buhler, Patrick Crowley
IJBRA
2006
61views more  IJBRA 2006»
13 years 7 months ago
Finding functional promoter motifs by computational methods: a word of caution
: The standard practice in the analysis of promoters is to select promoter regions of convenient length. This may lead to false results when searching for Transcription Factor Bind...
Rajesh Chowdhary, Limsoon Wong, Vladimir B. Bajic
BMCBI
2007
116views more  BMCBI 2007»
13 years 7 months ago
Clustering protein environments for function prediction: finding PROSITE motifs in 3D
Background: Structural genomics initiatives are producing increasing numbers of threedimensional (3D) structures for which there is little functional information. Structure-based ...
Sungroh Yoon, Jessica C. Ebert, Eui-Young Chung, G...
BMCBI
2004
88views more  BMCBI 2004»
13 years 7 months ago
PhyME: A probabilistic algorithm for finding motifs in sets of orthologous sequences
Background: This paper addresses the problem of discovering transcription factor binding sites in heterogeneous sequence data, which includes regulatory sequences of one or more g...
Saurabh Sinha, Mathieu Blanchette, Martin Tompa