title: MCScanX-transposed: detecting transposed gene duplications based on multiple colinearity scans.
abstract: CONCLUSIONS
  Gene duplication occurs via different modes such as segmental and single-gene duplications. Transposed gene duplication, a specific form of single-gene duplication, 'copies' a gene from an ancestral chromosomal location to a novel location. MCScanX is a toolkit for detection and evolutionary analysis of gene colinearity. We have developed MCScanX-transposed, a software package to detect transposed gene duplications that occurred within different epochs, based on execution of MCScanX within and between related genomes. MCScanX-transposed can be also used for integrative analysis of gene duplication modes for a genome and to annotate a gene family of interest with gene duplication modes.
  
  
  BACKGROUND
  MCScanX-transposed is freely available at http://chibba.pgml.uga.edu/mcscan2/transposed/
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602, USA. wyp1125@gmail.com
authors.forename: Yupeng
authors.initials: Y
authors.lastname: Wang
authors.forename: Jingping
authors.initials: J
authors.lastname: Li
authors.forename: Andrew H
authors.initials: AH
authors.lastname: Paterson
mesh_terms: D000465:Algorithms; D019143:Evolution, Molecular; D020440:Gene Duplication; D023281:Genomics; D012984:Software