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qichao1984 / NCyc

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Accession IDs of reference database #6

Open rprops opened 5 years ago

rprops commented 5 years ago

Hi, Is it possible to provide the accession IDs of the sequences used in NCyc_100.faa.gz? Thanks, Ruben

qichao1984 commented 5 years ago

NCBI accession numbers are not available since these sequences come from UniProt and multiple orthologous databases (e.g. COG, eggNOG, KEGG, and m5nr etc.), not from NCBI nr/nt databases. However, the sequence IDs from the original databases are retained in the NCyc_100.faa.gz file.

From: rprops notifications@github.com Sent: Tuesday, April 16, 2019 12:04 AM To: qichao1984/NCyc Cc: Subscribed Subject: [qichao1984/NCyc] Accession IDs of reference database (#6)

Hi, Is it possible to provide the accession IDs of the sequences used in NCyc_100.faa.gz? Thanks, Ruben

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rprops commented 5 years ago

Understood, thanks for the clarification. I was just wondering if there was a way using these identifiers to trace back the taxonomy/organism from which these genes were retrieved. This would allow a more detailed inspection of the homology between query and reference sequences.