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- Title
DAGchainer: a tool for mining segmental genome duplications and synteny.
- Authors
Haas, Brian J; Delcher, Arthur L; Wortman, Jennifer R; Salzberg, Steven L
- Abstract
Given the positions of protein-coding genes along genomic sequence and probability values for protein alignments between genes, DAGchainer identifies chains of gene pairs sharing conserved order between genomic regions, by identifying paths through a directed acyclic graph (DAG). These chains of collinear gene pairs can represent segmentally duplicated regions and genes within a single genome or syntenic regions between related genomes. Automated mining of the Arabidopsis genome for segmental duplications illustrates the use of DAGchainer.
- Publication
Bioinformatics (Oxford, England), 2004, Vol 20, Issue 18, p3643
- ISSN
1367-4803
- Publication type
Journal Article
- DOI
10.1093/bioinformatics/bth397