PanRes database of antimicrobial resistance genesMany 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: "ARGfinder - a pipeline for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets" (Unpublished, submitted)Briefly, the PanRes gene collection is gathered from a combination of other resistance gene collections into one, so each unique sequence has an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.A number of previously published collections of ARGs were used in the creation of PanRes (See references):ResFinder (downloaded 2023-01-20, (Bortolaia et al. 2020)),ResFinderFG (version 2.0, (Gschwind et al. 2023))CARD (version 3.2.5, (Alcock et al. 2023))MegaRes (version 3.0.0, (Bonin et al. 2023))AMRFinderPlus (version 3.11/2022-12-19.1, (Feldgarden et al. 2021))ARGANNOT (V6_July2019, (Gupta et al. 2014))The 'CsabaPal' collection (Provided by Csaba Pál and Zoltán Farkas in November 2022, Daruka et al. 2023))BacMet (version 1.1, (Pal et al. 2014))

PanRes database of antimicrobial resistance genesMany 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: "ARGfinder - a pipeline for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets" (Unpublished, submitted)Briefly, the PanRes gene collection is gathered from a combination of other resistance gene collections into one, so each unique sequence has an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.A number of previously published collections of ARGs were used in the creation of PanRes (See references):ResFinder (downloaded 2023-01-20, (Bortolaia et al. 2020)),ResFinderFG (version 2.0, (Gschwind et al. 2023))CARD (version 3.2.5, (Alcock et al. 2023))MegaRes (version 3.0.0, (Bonin et al. 2023))AMRFinderPlus (version 3.11/2022-12-19.1, (Feldgarden et al. 2021))ARGANNOT (V6_July2019, (Gupta et al. 2014))The 'CsabaPal' collection (Provided by Csaba Pál and Zoltán Farkas in November 2022, Daruka et al. 2023))BacMet (version 1.1, (Pal et al. 2014))

PanRes database of antimicrobial resistance genesMany 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: "ARGfinder - a pipeline for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets" (Unpublished, submitted)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.A number of previously published collections of ARGs were used in the creation of PanRes (See references):ResFinder (downloaded 2023-01-20, (Bortolaia et al. 2020)),ResFinderFG (version 2.0, (Gschwind et al. 2023))CARD (version 3.2.5, (Alcock et al. 2023))MegaRes (version 3.0.0, (Bonin et al. 2023))AMRFinderPlus (version 3.11/2022-12-19.1, (Feldgarden et al. 2021))ARGANNOT (V6_July2019, (Gupta et al. 2014))The 'CsabaPal' collection (Provided by Csaba Pál and Zoltán Farkas in November 2022, Daruka et al. 2023))BacMet (version 1.1, (Pal et al. 2014))

PanRes database of antimicrobial resistance genes 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: "ARGfinder - a pipeline for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets" 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.

A number of previously published collections of ARGs were used in the creation of PanRes (See references): ResFinder (downloaded 2023-01-20, (Bortolaia et al. 2020)),
ResFinderFG (version 2.0, (Gschwind et al. 2023))
CARD (version 3.2.5, (Alcock et al. 2023))
MegaRes (version 3.0.0, (Bonin et al. 2023))
AMRFinderPlus (version 3.11/2022-12-19.1, (Feldgarden et al. 2021))
ARGANNOT (V6_July2019, (Gupta et al. 2014))
The 'CsabaPal' collection (Provided by Csaba Pál and Zoltán Farkas in November 2022, Daruka et al. 2023))
BacMet (version 1.1, (Pal et al. 2014))

MetalResistance database of genes providing resistance towards heavy metals The sequences encoding the proteins in BacMet 1.1 (experimentally confirmed) were supplemented with a number of genes identified through screening of research articles using search terms. For more details, see the methods section of the study: ARGfinder - a pipeline for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets This collection of metal resistance genes were used in the construction of the PanRes database

MetalResistance database of genes providing resistance towards heavy metals The sequences encoding the proteins in BacMet 1.1 (experimentally confirmed) were supplemented with a number of genes identified through screening of research articles using search terms. For more details, see the methods section of the study: ARGfinder - a pipeline for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets This collection of metal resistance genes were used in the construction of the PanRes database