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» The Distribution of Genomic Distance between Random Genomes
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COCOON
2005
Springer
13 years 10 months ago
Conserved Interval Distance Computation Between Non-trivial Genomes
Recently, several studies taking into account the ability for a gene to be absent or to have some copies in genomes have been proposed, as the examplar distance [11, 6] or the gene...
Guillaume Blin, Romeo Rizzi
BMCBI
2010
100views more  BMCBI 2010»
13 years 4 months ago
Scaffold filling, contig fusion and comparative gene order inference
Background: There has been a trend in increasing the phylogenetic scope of genome sequencing without finishing the sequence of the genome. Increasing numbers of genomes are being ...
Adriana Muñoz, Chunfang Zheng, Qian Zhu, Vi...
JCB
2008
144views more  JCB 2008»
13 years 4 months ago
Multi-Break Rearrangements and Breakpoint Re-Uses: From Circular to Linear Genomes
Multi-break rearrangements break a genome into multiple fragments and further glue them together in a new order. While 2-break rearrangements represent standard reversals, fusions...
Max A. Alekseyev
BIOINFORMATICS
2011
12 years 11 months ago
Algorithms for sorting unsigned linear genomes by the DCJ operations
Motivation: The double cut and join operation (abbreviated as DCJ) has been extensively used for genomic rearrangement. Although the DCJ distance between signed genomes with both ...
Haitao Jiang, Binhai Zhu, Daming Zhu
BMCBI
2006
137views more  BMCBI 2006»
13 years 4 months ago
Genome BLAST distance phylogenies inferred from whole plastid and whole mitochondrion genome sequences
Background: Phylogenetic methods which do not rely on multiple sequence alignments are important tools in inferring trees directly from completely sequenced genomes. Here, we exte...
Alexander F. Auch, Stefan R. Henz, Barbara R. Holl...