[Genome] question about knownToPfam data

[Rachel Harte]

Deart Tiger Chen,

The knownToPfam table is simply created through a mapping of the UniProt 
Protein IDs. For each Protein ID in the knownGene table e.g. 
Q504R2_HUMAN we find the corresponding UniProt accession in our local 
UniProt database. Then we search UniProt to find the Pfam ID associated with
that UniProt accession and associate that Pfam ID with the known Gene.

I hope that this answers your question. Please let us know if you have 
further questions.

Rachel

> Hi, dear UCSC genome browser maintainer:
> I am using knownToPfam data, e.g. sgdToPfam and flybaseToPfam, in UCSC
> genome browser database. I want to know how these data files were
> generated? Using HMMER software and Pfam library with default
> parameters? or modified parameters?
> Thanks very much,
>
>

-- 
Rachel Harte
UCSC Genome Bioinformatics Group
http://genome.ucsc.edu