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» A comparative genome approach to marker ordering
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RECOMB
2001
Springer
14 years 8 months ago
Algorithms for phylogenetic footprinting
Phylogenetic footprinting is a comparative genomics approach for predicting transcription factor binding sites, where a set of orthologous regulatory regions are compared and short...
Mathieu Blanchette
BMCBI
2010
176views more  BMCBI 2010»
13 years 7 months ago
TargetSpy: a supervised machine learning approach for microRNA target prediction
Background: Virtually all currently available microRNA target site prediction algorithms require the presence of a (conserved) seed match to the 5' end of the microRNA. Recen...
Martin Sturm, Michael Hackenberg, David Langenberg...
BMCBI
2002
188views more  BMCBI 2002»
13 years 7 months ago
The limit fold change model: A practical approach for selecting differentially expressed genes from microarray data
Background: The biomedical community is developing new methods of data analysis to more efficiently process the massive data sets produced by microarray experiments. Systematic an...
David M. Mutch, Alvin Berger, Robert Mansourian, A...
BMCBI
2007
131views more  BMCBI 2007»
13 years 7 months ago
An improved method for identifying functionally linked proteins using phylogenetic profiles
Background: Phylogenetic profiles record the occurrence of homologs of genes across fully sequenced organisms. Proteins with similar profiles are typically components of protein c...
Shawn Cokus, Sayaka Mizutani, Matteo Pellegrini
BMCBI
2010
147views more  BMCBI 2010»
13 years 7 months ago
baySeq: Empirical Bayesian methods for identifying differential expression in sequence count data
Background: High throughput sequencing has become an important technology for studying expression levels in many types of genomic, and particularly transcriptomic, data. One key w...
Thomas J. Hardcastle, Krystyna A. Kelly