PanExplorer: A web-based tool for exploratory analysis and visualization of bacterial pan-genomes

Dereeper Alexis, Summo Marilyne, Meyer Damien. 2022. PanExplorer: A web-based tool for exploratory analysis and visualization of bacterial pan-genomes. Bioinformatics, 38 (18) : 4412-4414.

https://doi.org/10.1093/bioinformatics/btac504

Article de revue ; Article de recherche ; Article de revue à facteur d'impact

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Url - autres données associées : https://github.com/SouthGreenPlatform/PanExplorer

Résumé : Motivation: As pan-genome approaches are largely employed for bacterial comparative genomics and evolution analyses, but still difficult to be carried out by non-bioinformatician biologists, there is a need for an innovative tool facilitating the exploration of bacterial pan-genomes. Results: PanExplorer is a web application providing various genomic analyses and reports, giving intuitive views that enable a better understanding of bacterial pan-genomes. As an example, we produced the pan-genome for 121 Anaplasmataceae strains (including 30 Ehrlichia, 15 Anaplasma, 68 Wolbachia.) Availability and implementation: PanExplorer is written in Perl CGI and relies on several JavaScript libraries for visualization (hotmap.js, MauveViewer, CircosJS). It is freely available at http://panexplorer.southgreen.fr. The source code has been released in a GitHub repository https://github.com/SouthGreenPlatform/PanExplorer. A documentation section is available on PanExplorer website.

Mots-clés Agrovoc : génome, séquence nucléotidique, Ehrlichia, évolution, Anaplasma

Champ stratégique Cirad : CTS 7 (2019-) - Hors champs stratégiques

Agences de financement européennes : European Commission

Projets sur financement : (EU) Maladies infectieuses humaines, animales et végétales en milieu insulaire tropical : surveillance, diagnostic, contrôle et impact

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