title: HieranoiDB: a database of orthologs inferred by Hieranoid.
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.
authors.affiliation: Stockholm Bioinformatics Center, Department of Biochemistry and Biophysics, Stockholm University, Science for Life Laboratory, Box 1031, 17121 Solna, Sweden mateusz.kaduk@scilifelab.se.
authors.forename: Mateusz
authors.initials: M
authors.lastname: Kaduk
authors.affiliation: Stockholm Bioinformatics Center, Department of Biochemistry and Biophysics, Stockholm University, Science for Life Laboratory, Box 1031, 17121 Solna, Sweden.|FH OÖ - University of Applied Sciences Upper Austria, Hagenberg 4232, Austria.
authors.forename: Christian
authors.initials: C
authors.lastname: Riegler
authors.affiliation: Stockholm Bioinformatics Center, Department of Biochemistry and Biophysics, Stockholm University, Science for Life Laboratory, Box 1031, 17121 Solna, Sweden.|FH OÖ - University of Applied Sciences Upper Austria, Hagenberg 4232, Austria.
authors.forename: Oliver
authors.initials: O
authors.lastname: Lemp
authors.affiliation: Stockholm Bioinformatics Center, Department of Biochemistry and Biophysics, Stockholm University, Science for Life Laboratory, Box 1031, 17121 Solna, Sweden.
authors.forename: Erik L L
authors.initials: EL
authors.lastname: Sonnhammer
mesh_terms: D005075:Biological Evolution; D030541:Databases, Genetic; D040901:Proteomics / Q000379:methods; D012984:Software; D064878:Web Browser