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- Title
MANTIS: a phylogenetic framework for multi-species genome comparisons.
- Authors
Athanasia C. Tzika; Raphaël Helaers; Yves Van de Peer; Michel C. Milinkovitch
- Abstract
Motivation: Practitioners of comparative genomics face huge analytical challenges as whole genome sequences and functional/expression data accumulate. Furthermore, the field would greatly benefit from a better integration of this wealth of data with evolutionary concepts. Results: Here, we present MANTIS, a relational database for the analysis of (i) gains and losses of genes on specific branches of the metazoan phylogeny, (ii) reconstructed genome content of ancestral species and (iii) over- or under-representation of functions/processes and tissue specificity of gained, duplicated and lost genes. MANTIS estimates the most likely positions of gene losses on the true phylogeny using a maximum-likelihood function. A user-friendly interface and an extensive query system allow to investigate questions pertaining to gene identity, phylogenetic mapping and function/expression parameters. Availability: MANTIS is freely available at http://www.mantisdb.org and constitutes the missing link between multi-species genome comparisons and functional analyses. Contact: mcmilink@ulb.ac.be Supplementary information: Supplementary data are available at Bioinformatics online.
- Publication
Bioinformatics, 2008, Vol 24, Issue 2, p151
- ISSN
1367-4803
- Publication type
Academic Journal
- DOI
10.1093/bioinformatics/btm567