Genomicus
Computational Tool
FAIR Metrics
0 evaluations
General Information
DescriptionA database and a browser to study gene synteny in modern and ancestral genomes
Homepagehttp://www.dyogen.ens.fr/genomicus
Publications
Genomicus: a database and a browser to study gene synteny in modern and ancestral genomes
Matthieu Muffato; Alexandra Louis; Charles-Edouard Poisnel; Hugues Roest Crollius
Summary: Comparative genomics remains a pivotal strategy to study the evolution of gene organization, and this primacy is reinforced by the growing number of full genome sequences available in public repositories. Despite this growth, bioinformatic tools available to visualize and compare genomes and to infer evolutionary events remain restricted to two or three genomes at a time, thus limiting the breadth and the nature of the question that can be investigated. Here we present Genomicus, a new synteny browser that can represent and compare unlimited numbers of genomes in a broad phylogenetic view. In addition, Genomicus includes reconstructed ancestral gene organization, thus greatly facilitating the interpretation of the data.
Availability: Genomicus is freely available for online use at http://www.dyogen.ens.fr/genomicus while data can be downloaded at ftp://ftp.biologie.ens.fr/pub/dyogen/genomicus
Contact: hrc@biologie.ens.fr
DOI: https://doi.org/10.1093/bioinformatics/btq079
Metrics:
49
Genomicus: five genome browsers for comparative genomics in eukaryota
Alexandra Louis; Matthieu Muffato; Hugues Roest Crollius
Genomicus (http://www.dyogen.ens.fr/genomicus/) is a database and an online tool that allows easy comparative genomic visualization in >150 eukaryote genomes. It provides a way to explore spatial information related to gene organization within and between genomes and temporal relationships related to gene and genome evolution. For the specific vertebrate phylum, it also provides access to ancestral gene order reconstructions and conserved non-coding elements information. We extended the Genomicus database originally dedicated to vertebrate to four new clades, including plants, non-vertebrate metazoa, protists and fungi. This visualization tool allows evolutionary phylogenomics analysis and exploration. Here, we describe the graphical modules of Genomicus and show how it is capable of revealing differential gene loss and gain, segmental or genome duplications and study the evolution of a locus through homology relationships.
DOI: https://doi.org/10.1093/nar/gks1156
Metrics:
49
Canned Analyses generated by the tool
There are no indexed analyses by this tool at the moment.
Datasets analyzed by the tool
There are no indexed analyses by this tool at the moment.
FAIR Evaluation
Sorry, you must be signed in to evaluate this object.