amr_curation
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arpcard
A public repository for collective curation of antimicrobial resistance (AMR) genes and mutations. Submit, discuss, and resolve AMR curation issues.
Hello, This is a bit of strange issue within CARD currently that causes issues sorting the genes in a downstream analysis and necessitates a lot of intervention. Drug classes are...
Hello there, I am working with AMR data and I am finding CARD very useful. Just need to add AMR genes regarding Bedaquiline. As Bedaquiline is a drug for MDR...
From @iorga to @arpcard @agmcarthur @danielhhaft: > I saw that in the last NCBI/CARD update there were many additions and some changes regarding the OXY enzymes. Maybe that you are...
The MEGARes team (@Isabella136) has been reviewing CARD curation and has a list of errors for @arpcard to inspect: https://github.com/Isabella136/AmrPlusPlus_SNP/blob/in-depth/genes-issues.md
https://card.mcmaster.ca/ontology/38671 ARO:3002271 VIM-1 Shows ([PMID 18804966](http://www.ncbi.nlm.nih.gov/pubmed/18804966)) as relevant literature - but on skimming this paper, I can I only find mention of VIM-11, but not VIM-1. Cheers, Paul
Hello, I'd like to extract all E coli's resistant genes from CARD. I used `grep "Ecol_" aro.tsv` and I got 55 genes/RNAs. However, when I checked the aro.csv file I...
CARD is starting to curated sub-families of beta-lactamases into the ARO, but we should also start to curate sub-groups of beta-lactams, e.g., more specific groupings than just `cephalosporin`. Starting this...
Hi, I'm an annotator at UniProtKB/Swiss-Prot. I saw this paper (PMID 33820764) which refers to this protein AKA29893.1 and confers tolerance to ciprofloxacin. I've added it to Swiss-Prot (it won't...
Dear all, Historically, all OXA-258-like beta-lactamases were found in _Achromobacter_ spp., one [paper](https://doi.org/10.1128/jcm.03043-12) considering OXA-258 as a species-specific marker for _Achromobacter ruhlandii_. [OXA-1251](https://www.ncbi.nlm.nih.gov/protein/XBP46887.1) has 99.3% sequence identity with OXA-258, and...
Hello, The [FRI-8](https://www.ncbi.nlm.nih.gov/protein/WP_140423308) beta-lactamase (described in this [paper](http://dx.doi.org/10.1089/mdr.2022.0123)) has 99.6 % sequence identity with [FLC-1](https://www.ncbi.nlm.nih.gov/protein/WP_123061077), whereas it has only 81 % sequence identity with [FRI-1](https://www.ncbi.nlm.nih.gov/protein/WP_063860498). Additionally, the N-terminal sequence is...