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» GPAT: Retrieval of genomic annotation from large genomic pos...
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BMCBI
2010
115views more  BMCBI 2010»
13 years 8 months ago
Machine learning methods for metabolic pathway prediction
Background: A key challenge in systems biology is the reconstruction of an organism's metabolic network from its genome sequence. One strategy for addressing this problem is ...
Joseph M. Dale, Liviu Popescu, Peter D. Karp
BMCBI
2008
163views more  BMCBI 2008»
13 years 8 months ago
The Annotation, Mapping, Expression and Network (AMEN) suite of tools for molecular systems biology
Background: High-throughput genome biological experiments yield large and multifaceted datasets that require flexible and user-friendly analysis tools to facilitate their interpre...
Frédéric Chalmel, Michael Primig
BMCBI
2010
144views more  BMCBI 2010»
13 years 8 months ago
Identifying overrepresented concepts in gene lists from literature: a statistical approach based on Poisson mixture model
Background: Large-scale genomic studies often identify large gene lists, for example, the genes sharing the same expression patterns. The interpretation of these gene lists is gen...
Xin He, Moushumi Sen Sarma, Xu Ling, Brant W. Chee...
BMCBI
2005
246views more  BMCBI 2005»
13 years 8 months ago
ParPEST: a pipeline for EST data analysis based on parallel computing
Background: Expressed Sequence Tags (ESTs) are short and error-prone DNA sequences generated from the 5' and 3' ends of randomly selected cDNA clones. They provide an im...
Nunzio D'Agostino, Mario Aversano, Maria Luisa Chi...
BMCBI
2008
140views more  BMCBI 2008»
13 years 8 months ago
FUNYBASE: a FUNgal phYlogenomic dataBASE
Background: The increasing availability of fungal genome sequences provides large numbers of proteins for evolutionary and phylogenetic analyses. However the heterogeneity of data...
Sylvain Marthey, Gabriela Aguileta, Françoi...