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hivdb / sierra

HIVDB Genotypic Resistance Interpretation Program
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Reference Genome #35

Open erick-dorlass opened 1 year ago

erick-dorlass commented 1 year ago

Hello,

I was wondering abou what reference HIV-1 version does sierra uses. According to the releases notes presented in https://hivdb.stanford.edu/page/release-notes/, the platform uses the Consensus B sequence present in the LANL HIV database. However, a new version of the Consensus sequence seems to be available in LANL HIV according to this article: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8843389/

In the present day, is the reference sequence the Consensus B sequence generated in early 2000's or the recent Consensus B (2021)?

Thank you

philiptzou commented 1 year ago

Hello Erick,

The pol region of HIV-1 uses the consensus B sequence from this link: https://www.hiv.lanl.gov/content/sequence/HIV/CONSENSUS/Consensus.html. It was created in August 2004. For consistency, we will not update our reference sequence even if a new version is released.

erick-dorlass commented 1 year ago

Hello, phillip.

Thank you for such a fast response.

Regards