Genomicus in 2022: comparative tools for thousands of genomes and reconstructed ancestors

Author:

Nguyen Nga Thi Thuy1,Vincens Pierre1,Dufayard Jean François23ORCID,Roest Crollius Hugues1ORCID,Louis Alexandra1ORCID

Affiliation:

1. Institut de Biologie de l’ENS (IBENS), Département de biologie, École normale supérieure, CNRS, INSERM, Université PSL, 75005 Paris, France

2. CIRAD, UMR AGAP Institut, F-34398 Montpellier, France - UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, F-34398 Montpellier, France

3. French Institute of Bioinformatics (IFB) - South Green Bioinformatics Platform, Bioversity, CIRAD, INRAE, IRD, F-34398 Montpellier, France

Abstract

Abstract Genomicus is a database and web-server dedicated to comparative genomics in eukaryotes. Its main functionality is to graphically represent the conservation of genomic blocks between multiple genomes, locally around a specific gene of interest or genome-wide through karyotype comparisons. Since 2010 and its first release, Genomicus has synchronized with 60 Ensembl releases and seen the addition of functions that have expanded the type of analyses that users can perform. Today, five public instances of Genomicus are supporting a total number of 1029 extant genomes and 621 ancestral reconstructions from all eukaryotes kingdoms available in Ensembl and Ensembl Genomes databases complemented with four additional instances specific to taxonomic groups of interest. New visualization and query tools are described in this manuscript. Genomicus is freely available at http://www.genomicus.bio.ens.psl.eu/genomicus.

Funder

ANR

RENABI-IFB

CNRS

Publisher

Oxford University Press (OUP)

Subject

Genetics

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