[Bioperl-l] PubMed records (was: MeSH terms)
cjfields at illinois.edu
Sun Oct 25 10:16:34 EDT 2009
On Oct 25, 2009, at 6:12 AM, Peter wrote:
> On Sat, Oct 24, 2009 at 6:45 PM, Robert Bradbury
> <robert.bradbury at gmail.com> wrote:
>> <alsaplayer-devel at lists.tartarus.org>
>> I'm not sure if this is related to the MeSH question question or
>> not, but
>> I've googled the documentation several times and never managed to
>> "robust" examples for how to manipulate PubMed records.
>> It would seem that there ought to be code lying around which does:
>> Given Genbank ID,
>> Fetch all Pubmed records from that ID
>> Fetch all related records (via NCBI's "related" record IDs)
> Isn't this exactly what the NCBI's ELink is for?
> You'd need to work out which of the Entrez databases you are
> starting from (probably protein or genome), and then the relevant
> ELink command (maybe genome_pubmed, or protein_pubmed,
> protein_pubmed or protein_pubmed_weighted look possible).
> Then for related pubmed articles, the ELink command is just
Agreed. This should be possible through BioPerl's
Bio::DB::EUtilities. I'll try to post an example up.
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