[Bioperl-l] Is it possible to retrieve full pubmed articles

[Miguel Pignatelli]

Thanks for the response,

I have PMIDs extracted from Genbank flat files, is there a way to  
convert PMIDs to PMCIDs?
I found this page:

http://www.ncbi.nlm.nih.gov/sites/pmctopmid

Is it possible to download the underlying conversion table for local  
use?

Thank you very much in advance,

M;


El 01/04/2009, a las 21:48, Smithies, Russell escribió:

> Not all articles have full-text at Pubmed but if you know the  
> article ID, you can usually get the whole article (if available)  
> like this:
> http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1307096&tool=pmcentrez
>
> or as pdf
> http://www.pubmedcentral.nih.gov/picrender.fcgi?artid=1307096&blobtype=pdf
>
> I'd just build a URL and use wget.
>
> If you're searching Pubmed directly, use a query like this to ensure  
> you only get articles with links to full text:
>
> 	cancer AND (free full text[sb])
> eg 	http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&term=cancer+AND+(free+full+text 
> [sb])
>
>
> Russell Smithies
>
> Bioinformatics Applications Developer
> T +64 3 489 9085
> E  russell.smithies at agresearch.co.nz
>
> Invermay  Research Centre
> Puddle Alley,
> Mosgiel,
> New Zealand
> T  +64 3 489 3809
> F  +64 3 489 9174
> www.agresearch.co.nz
>
>
>
>
>> -----Original Message-----
>> From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-
>> bounces at lists.open-bio.org] On Behalf Of Miguel Pignatelli
>> Sent: Thursday, 2 April 2009 6:16 a.m.
>> To: bioperl-l at lists.open-bio.org
>> Subject: [Bioperl-l] Is it possible to retrieve full pubmed articles
>>
>> Hi all,
>>
>> I have a list of PUBMED IDs and I am trying to retrieve automatically
>> the *full article* in any format (not just the abstract). Is there  
>> any
>> method in bioperl that allows this? any other solution?
>> Currently I am trying to solve this using WWW::Mechanize, but do you
>> know of any other method to do this?
>>
>> Any help would be appreciated,
>>
>> Thanks in advance,
>>
>> M;
>>
>>
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>> Bioperl-l mailing list
>> Bioperl-l at lists.open-bio.org
>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
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