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BMCBI
2006
95views more  BMCBI 2006»
13 years 7 months ago
XcisClique: analysis of regulatory bicliques
Background: Modeling of cis-elements or regulatory motifs in promoter (upstream) regions of genes is a challenging computational problem. In this work, set of regulatory motifs si...
Amrita Pati, Cecilia Vasquez-Robinet, Lenwood S. H...
BMCBI
2006
374views more  BMCBI 2006»
13 years 7 months ago
AMDA: an R package for the automated microarray data analysis
Background: Microarrays are routinely used to assess mRNA transcript levels on a genome-wide scale. Large amount of microarray datasets are now available in several databases, and...
Mattia Pelizzola, Norman Pavelka, Maria Foti, Paol...
BMCBI
2006
139views more  BMCBI 2006»
13 years 7 months ago
Improvement in accuracy of multiple sequence alignment using novel group-to-group sequence alignment algorithm with piecewise li
Background: Multiple sequence alignment (MSA) is a useful tool in bioinformatics. Although many MSA algorithms have been developed, there is still room for improvement in accuracy...
Shinsuke Yamada, Osamu Gotoh, Hayato Yamana
BMCBI
2006
154views more  BMCBI 2006»
13 years 7 months ago
Agile methods in biomedical software development: a multi-site experience report
Background: Agile is an iterative approach to software development that relies on strong collaboration and automation to keep pace with dynamic environments. We have successfully ...
David W. Kane, Moses M. Hohman, Ethan G. Cerami, M...
BMCBI
2006
178views more  BMCBI 2006»
13 years 7 months ago
GOLEM: an interactive graph-based gene-ontology navigation and analysis tool
Background: The Gene Ontology has become an extremely useful tool for the analysis of genomic data and structuring of biological knowledge. Several excellent software tools for na...
Rachel S. G. Sealfon, Matthew A. Hibbs, Curtis Hut...
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