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BMCBI
2008
130views more  BMCBI 2008»
15 years 6 months ago
A database of phylogenetically atypical genes in archaeal and bacterial genomes, identified using the DarkHorse algorithm
Background: The process of horizontal gene transfer (HGT) is believed to be widespread in Bacteria and Archaea, but little comparative data is available addressing its occurrence ...
Sheila Podell, Terry Gaasterland, Eric E. Allen
BMCBI
2010
149views more  BMCBI 2010»
15 years 6 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
2008
145views more  BMCBI 2008»
15 years 6 months ago
The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction
Background: Amino acids responsible for structure, core function or specificity may be inferred from multiple protein sequence alignments where a limited set of residue types are ...
Jonathan R. Manning, Emily R. Jefferson, Geoffrey ...
BMCBI
2010
165views more  BMCBI 2010»
15 years 6 months ago
Filtering, FDR and power
Background: In high-dimensional data analysis such as differential gene expression analysis, people often use filtering methods like fold-change or variance filters in an attempt ...
Maarten van Iterson, Judith M. Boer, Renée ...
BMCBI
2010
133views more  BMCBI 2010»
15 years 6 months ago
Predicting enzyme targets for cancer drugs by profiling human Metabolic reactions in NCI-60 cell lines
Background: Drugs can influence the whole metabolic system by targeting enzymes which catalyze metabolic reactions. The existence of interactions between drugs and metabolic react...
Limin Li, Xiaobo Zhou, Wai-Ki Ching, Ping Wang
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