MANTIS: a phylogenetic framework for multi-species genome comparisons

作者：Tzika Athanasia C; Helaers Raphael; Van de Peer Yves; Milinkovitch Michel C^*

来源：Bioinformatics, 2008, 24(2): 151-157.

DOI：10.1093/bioinformatics/btm567

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.

• 出版日期2008-1-15