CARD Short Name signification (SPECIES_GENE_ANTIBIOTIC Vs GENE)

arpcard / aro

The Antibiotic Resistance Ontology (ARO) organizes the information describing the ability of a microorganism to withstand the effects of an antibiotic

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CARD Short Name signification (SPECIES_GENE_ANTIBIOTIC Vs GENE) #16

Open AnisMansouri opened 2 months ago

AnisMansouri commented 2 months ago

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 found other E coli AMR genes, e.g. baeS, but without the prefix "Ecol ". Should I also consider those genes? What is the difference between "SPECIES_GENE_DRUG" and "GENE" according to CARD Short Name rules?

Thank you,