[Biopython] Record count in pcassay database

[bar tomas]

Thanks very much for your reply.
By the way in your http query you specify *term=all[filt]*
I've just tried the same with BioPython and it does retireve all records:


handle = Entrez.esearch(db=*"pcassay"*, term=*"ALL[filt]"*)
Is 'filt' the standard wildcard for Entrez queries ?

Thanks.

On Tue, Jul 14, 2009 at 12:30 PM, Brad Chapman <chapmanb at 50mail.com> wrote:

> Hello;
>
> > I'm using Biopython to access Entrez databases.
> > I've retrieved information of the pcassay database with the following
> code:
> >
> >
> > handle=Entrez.einfo(db=*"pcassay"*)
> > record=Entrez.read(handle)
> > print record[*'DbInfo'*][*'Count'*]
> >
> > Printing the record count of pcassay gives :
> > *1659*
> > Such a limited number of records seems impossible.
> > Am I using Biopython incorrectly ?
>
> That count looks right to me if I manually browse the PubChem
> BioAssay database:
>
> http://www.ncbi.nlm.nih.gov/pcassay?term=all[filt]
>
> It looks like you are retrieving the top level assay records. The
> counts for total compounds assayed will be much higher but you would
> need to examine individual records of interest to determine those.
>
> Hope this helps,
> Brad
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