How to find the number of copies of genes (e.g. 23S rRNA) present in a genome?

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3.3 years ago

eli_bayat ▴ 90

Hello,

I am in the process of collecting Antimicrobial resistance reference data and metadata. I have 2 questions and will appreciate any help.

Where I can collect antimicrobial resistance reference data? I found Reference Gene Catalog from NCBI (NDARO) and CARD in mcmaster. Is there a better database that I can use?
Where can I find metadata? for example the number of copies of genes or how many of copies translate into certain level of drug resistance.

Any help will be greatly appreciated.

antimicrobial-resistance reference-database copies-of-genes metadata NCBI • 925 views

ADD COMMENT • link 3.3 years ago by eli_bayat ▴ 90

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What is wrong with CARD??

I guess you can use RGI tool for the AMR gene detection along with their copy number.

ADD REPLY • link 3.3 years ago by Nitin Narwade ★ 1.6k

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Thank you so much, nothing is wrong with CARD, I wanted to make sure these sources are good :). Thank you

ADD REPLY • link 3.3 years ago by eli_bayat ▴ 90

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