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Nucleic Acids Res. 2017 Jan 4;45(D1):D687-D690. doi: 10.1093/nar/gkw923. Epub 2016 Oct 13.

HieranoiDB: a database of orthologs inferred by Hieranoid.

Author information

  • 1Stockholm Bioinformatics Center, Department of Biochemistry and Biophysics, Stockholm University, Science for Life Laboratory, Box 1031, 17121 Solna, Sweden mateusz.kaduk@scilifelab.se.
  • 2Stockholm Bioinformatics Center, Department of Biochemistry and Biophysics, Stockholm University, Science for Life Laboratory, Box 1031, 17121 Solna, Sweden.
  • 3FH OÖ - University of Applied Sciences Upper Austria, Hagenberg 4232, Austria.

Abstract

HieranoiDB (http://hieranoiDB.sbc.su.se) is a freely available on-line database for hierarchical groups of orthologs inferred by the Hieranoid algorithm. It infers orthologs at each node in a species guide tree with the InParanoid algorithm as it progresses from the leaves to the root. Here we present a database HieranoiDB with a web interface that makes it easy to search and visualize the output of Hieranoid, and to download it in various formats. Searching can be performed using protein description, identifier or sequence. In this first version, orthologs are available for the 66 Quest for Orthologs reference proteomes. The ortholog trees are shown graphically and interactively with marked speciation and duplication nodes that show the inferred evolutionary scenario, and allow for correct extraction of predicted orthologs from the Hieranoid trees.

PMID:
27742821
PMCID:
PMC5210627
DOI:
10.1093/nar/gkw923
[PubMed - in process]
Free PMC Article
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