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BMCBI
2011
14 years 4 months ago
RAIphy: Phylogenetic classification of metagenomics samples using iterative refinement of relative abundance index profiles
Background: Computational analysis of metagenomes requires the taxonomical assignment of the genome contigs assembled from DNA reads of environmental samples. Because of the diver...
Ozkan U. Nalbantoglu, Samuel F. Way, Steven H. Hin...
99
Voted
BMCBI
2011
14 years 4 months ago
Simulated evolution applied to study the genetic code optimality using a model of codon reassignments
Background: As the canonical code is not universal, different theories about its origin and organization have appeared. The optimization or level of adaptation of the canonical ge...
Jose Santos, Ángel Monteagudo
89
Voted
BMCBI
2011
14 years 4 months ago
Support vector machines-based identification of alternative splicing in Arabidopsis thaliana from whole-genome tiling arrays
Background: Alternative splicing (AS) is a process which generates several distinct mRNA isoforms from the same gene by splicing different portions out of the precursor transcript...
Johannes Eichner, Georg Zeller, Sascha Laubinger, ...
BMCBI
2011
14 years 4 months ago
Errors in CGAP xProfiler and cDNA DGED: the importance of library parsing and gene selection algorithms
Background: The Cancer Genome Anatomy Project (CGAP) xProfiler and cDNA Digital Gene Expression Displayer (DGED) have been made available to the scientific community over a decade...
Andrew T. Milnthorpe, Mikhail Soloviev
EVOW
2011
Springer
14 years 1 months ago
Local Search for Mixed-Integer Nonlinear Optimization: A Methodology and an Application
Abstract. A methodology is presented for tackling mixed-integer nonlinear optimization problems by local search, in particular large-scale real-life problems. This methodology is i...
Frédéric Gardi, Karim Nouioua