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BMCBI
2010
183views more  BMCBI 2010»
13 years 10 months ago
SOPRA: Scaffolding algorithm for paired reads via statistical optimization
Background: High throughput sequencing (HTS) platforms produce gigabases of short read (<100 bp) data per run. While these short reads are adequate for resequencing application...
Adel Dayarian, Todd P. Michael, Anirvan M. Sengupt...
BMCBI
2010
233views more  BMCBI 2010»
13 years 10 months ago
Odefy -- From discrete to continuous models
Background: Phenomenological information about regulatory interactions is frequently available and can be readily converted to Boolean models. Fully quantitative models, on the ot...
Jan Krumsiek, Sebastian Pölsterl, Dominik M. ...
BMCBI
2010
103views more  BMCBI 2010»
13 years 10 months ago
PostMod: sequence based prediction of kinase-specific phosphorylation sites with indirect relationship
Background: Post-translational modifications (PTMs) have a key role in regulating cell functions. Consequently, identification of PTM sites has a significant impact on understandi...
Inkyung Jung, Akihisa Matsuyama, Minoru Yoshida, D...
BMCBI
2010
135views more  BMCBI 2010»
13 years 10 months ago
Efficient genome-scale phylogenetic analysis under the duplication-loss and deep coalescence cost models
Background: Genomic data provide a wealth of new information for phylogenetic analysis. Yet making use of this data requires phylogenetic methods that can efficiently analyze extr...
Mukul S. Bansal, J. Gordon Burleigh, Oliver Eulens...
BMCBI
2010
160views more  BMCBI 2010»
13 years 10 months ago
Identification of functional hubs and modules by converting interactome networks into hierarchical ordering of proteins
Background: Protein-protein interactions play a key role in biological processes of proteins within a cell. Recent high-throughput techniques have generated protein-protein intera...
Young-Rae Cho, Aidong Zhang
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