Publications

Bioinformatics (Oxford, England). 2004-12-12; 20.18: 3643-6.

DAGchainer: a tool for mining segmental genome duplications and synteny

Haas BJ, Delcher AL, Wortman JR, Salzberg SL

PMID: 15247098

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.

Metrics