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BMCBI
2010
90views more  BMCBI 2010»
13 years 10 months ago
Local alignment of generalized k-base encoded DNA sequence
Background: DNA sequence comparison is a well-studied problem, in which two DNA sequences are compared using a weighted edit distance. Recent DNA sequencing technologies however o...
Nils Homer, Stanley F. Nelson, Barry Merriman
BMCBI
2010
118views more  BMCBI 2010»
13 years 10 months ago
Detecting lateral gene transfers by statistical reconciliation of phylogenetic forests
Background: To understand the evolutionary role of Lateral Gene Transfer (LGT), accurate methods are needed to identify transferred genes and infer their timing of acquisition. Ph...
Sophie S. Abby, Eric Tannier, Manolo Gouy, Vincent...
BMCBI
2010
102views more  BMCBI 2010»
13 years 10 months ago
Identification of recurrent regions of copy-number variants across multiple individuals
Background: Algorithms and software for CNV detection have been developed, but they detect the CNV regions sample-by-sample with individual-specific breakpoints, while common CNV ...
Teo Shu Mei, Agus Salim, Stefano Calza, Ku Chee Se...
BMCBI
2010
102views more  BMCBI 2010»
13 years 10 months ago
Missing genes in the annotation of prokaryotic genomes
Background: Protein-coding gene detection in prokaryotic genomes is considered a much simpler problem than in intron-containing eukaryotic genomes. However there have been reports...
Andrew S. Warren, Jeremy S. Archuleta, Wu-chun Fen...
BMCBI
2010
136views more  BMCBI 2010»
13 years 10 months ago
Bias correction and Bayesian analysis of aggregate counts in SAGE libraries
Background: Tag-based techniques, such as SAGE, are commonly used to sample the mRNA pool of an organism's transcriptome. Incomplete digestion during the tag formation proces...
Russell L. Zaretzki, Michael A. Gilchrist, William...