DOI: 10.5281/zenodo.8055116
title: PanRes - Collection of antimicrobial resistance genes

description: <strong>PanRes database of antimicrobial resistance genes</strong> Many different collections of antimicrobial resistance genes (ARGs) have been collected and used for various purposes. In order to develop a workflow for mass screening of public metagenomes, we recently gathered up and filtered in a number of these gene collections to produce PanRes. For details, please see the methods section in the following publication: <strong> "ARGfinder - a pipeline for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets"</strong> Briefly, the PanRes gene collection is gathered from a combination of other resistance gene collections into one, so each unique sequence has an "pan_" identifier (PanRes_genes). A separate table (PanRes_data) provides an overview of all the genes, their origin database and which genes cluster together in high-identity clusters.<br> <br> A number of previously published collections of ARGs were used in the creation of PanRes (See references): <strong>ResFinder</strong> (downloaded 2023-01-20, (Bortolaia et al. 2020)),<br> <strong>ResFinderFG</strong> (version 2.0, (Gschwind et al. 2023))<br> <strong>CARD</strong> (version 3.2.5, (Alcock et al. 2023))<br> <strong>MegaRes</strong> (version 3.0.0, (Bonin et al. 2023))<br> <strong>AMRFinderPlus</strong> (version 3.11/2022-12-19.1, (Feldgarden et al. 2021))<br> <strong>ARGANNOT</strong> (V6_July2019, (Gupta et al. 2014))<br> <strong>The 'CsabaPal' collection</strong> (Provided by Csaba Pál and Zoltán Farkas in November 2022, Daruka et al. 2023))<br> <strong>BacMet</strong> (version 1.1, (Pal et al. 2014))
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