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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...
BMCBI
2008
121views more  BMCBI 2008»
13 years 7 months ago
ReAlignerV: Web-based genomic alignment tool with high specificity and robustness estimated by species-specific insertion sequen
Background: Detecting conserved noncoding sequences (CNSs) across species highlights the functional elements. Alignment procedures combined with computational prediction of transc...
Hisakazu Iwama, Yukio Hori, Kensuke Matsumoto, Koj...
BMCBI
2007
152views more  BMCBI 2007»
13 years 7 months ago
Bioinformatic identification of novel putative photoreceptor specific cis-elements
Background: Cell specific gene expression is largely regulated by different combinations of transcription factors that bind cis-elements in the upstream promoter sequence. However...
Charles G. Danko, Vera A. McIlvain, Maochun Qin, B...
NAR
2007
216views more  NAR 2007»
13 years 7 months ago
SYSTOMONAS - an integrated database for systems biology analysis of Pseudomonas
To provide an integrated bioinformatics platform for a systems biology approach to the biology of pseudomonads in infection and biotechnology the database SYSTOMONAS (SYSTems biol...
Claudia Choi, Richard Münch, Stefan Leupold, ...
BMCBI
2006
116views more  BMCBI 2006»
13 years 7 months ago
Optimized mixed Markov models for motif identification
Background: Identifying functional elements, such as transcriptional factor binding sites, is a fundamental step in reconstructing gene regulatory networks and remains a challengi...
Weichun Huang, David M. Umbach, Uwe Ohler, Leping ...