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» A Methodology for Comparative Functional Genomics
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BMCBI
2006
86views more  BMCBI 2006»
14 years 9 months ago
MCALIGN2: Faster, accurate global pairwise alignment of non-coding DNA sequences based on explicit models of indel evolution
Background: Non-coding DNA sequences comprise a very large proportion of the total genomic content of mammals, most other vertebrates, many invertebrates, and most plants. Unravel...
Jun Wang, Peter D. Keightley, Toby Johnson
IPPS
2006
IEEE
15 years 3 months ago
Incrementally developing parallel applications with AspectJ
1 This paper presents a methodology to develop more modular parallel applications, based on aspect oriented programming. Traditional object oriented mechanisms implement applicatio...
João Luís Sobral
GECCO
2005
Springer
232views Optimization» more  GECCO 2005»
15 years 3 months ago
A hardware pipeline for function optimization using genetic algorithms
Genetic Algorithms (GAs) are very commonly used as function optimizers, basically due to their search capability. A number of different serial and parallel versions of GA exist. ...
Malay Kumar Pakhira, Rajat K. De
BMCBI
2008
259views more  BMCBI 2008»
14 years 9 months ago
DISCLOSE : DISsection of CLusters Obtained by SEries of transcriptome data using functional annotations and putative transcripti
Background: A typical step in the analysis of gene expression data is the determination of clusters of genes that exhibit similar expression patterns. Researchers are confronted w...
Evert-Jan Blom, Sacha A. F. T. van Hijum, Klaas J....
BMCBI
2006
144views more  BMCBI 2006»
14 years 9 months ago
More robust detection of motifs in coexpressed genes by using phylogenetic information
Background: Several motif detection algorithms have been developed to discover overrepresented motifs in sets of coexpressed genes. However, in a noisy gene list, the number of ge...
Pieter Monsieurs, Gert Thijs, Abeer A. Fadda, Sigr...