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» An association analysis approach to biclustering
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BMCBI
2010
149views more  BMCBI 2010»
13 years 7 months ago
RuleMonkey: software for stochastic simulation of rule-based models
Background: The system-level dynamics of many molecular interactions, particularly protein-protein interactions, can be conveniently represented using reaction rules, which can be...
Joshua Colvin, Michael I. Monine, Ryan N. Gutenkun...
BMCBI
2007
97views more  BMCBI 2007»
13 years 7 months ago
SIRAC: Supervised Identification of Regions of Aberration in aCGH datasets
Background: Array comparative genome hybridization (aCGH) provides information about genomic aberrations. Alterations in the DNA copy number may cause the cell to malfunction, lea...
Carmen Lai, Hugo M. Horlings, Marc J. van de Vijve...
BMCBI
2007
114views more  BMCBI 2007»
13 years 7 months ago
False occurrences of functional motifs in protein sequences highlight evolutionary constraints
Background: False occurrences of functional motifs in protein sequences can be considered as random events due solely to the sequence composition of a proteome. Here we use a nume...
Allegra Via, Pier Federico Gherardini, Enrico Ferr...
BMCBI
2007
152views more  BMCBI 2007»
13 years 7 months ago
Difference-based clustering of short time-course microarray data with replicates
Background: There are some limitations associated with conventional clustering methods for short time-course gene expression data. The current algorithms require prior domain know...
Jihoon Kim, Ju Han Kim
BMCBI
2008
138views more  BMCBI 2008»
13 years 7 months ago
Inference of haplotypic phase and missing genotypes in polyploid organisms and variable copy number genomic regions
Background: The power of haplotype-based methods for association studies, identification of regions under selection, and ancestral inference, is well-established for diploid organ...
Shu-Yi Su, Jonathan White, David J. Balding, Lachl...