Selectome update: quality control and computational improvements to a database of positive selection

Nucleic Acids Res. 2014 Jan;42(Database issue):D917-21. doi: 10.1093/nar/gkt1065. Epub 2013 Nov 12.


Selectome ( is a database of positive selection, based on a branch-site likelihood test. This model estimates the number of nonsynonymous substitutions (dN) and synonymous substitutions (dS) to evaluate the variation in selective pressure (dN/dS ratio) over branches and over sites. Since the original release of Selectome, we have benchmarked and implemented a thorough quality control procedure on multiple sequence alignments, aiming to provide minimum false-positive results. We have also improved the computational efficiency of the branch-site test implementation, allowing larger data sets and more frequent updates. Release 6 of Selectome includes all gene trees from Ensembl for Primates and Glires, as well as a large set of vertebrate gene trees. A total of 6810 gene trees have some evidence of positive selection. Finally, the web interface has been improved to be more responsive and to facilitate searches and browsing.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Databases, Nucleic Acid*
  • Genetic Variation
  • Genomics / standards
  • Humans
  • Internet
  • Quality Control
  • Selection, Genetic*
  • Sequence Alignment