[OWW-SC] Genbank Accession Number question

[Bill F]

Here's a link to a test page for EMBL's data on the OWW beta server. I'll
add information about the database names, formats, and styles if there's
interest.

      http://beta.openwetware.org/oww-dev/embla3.html

I've factored out a simple browser for the databases, styles, and formats
supported via EBML at http://www.ebi.ac.uk:

This page currently will open a new window with the style and format
requested for the database. The browser lists the format supported for each
of the formats. I can build a simplified version of this same query into the
biblio extension.

Let me know about how you folks would like to see the formats and styles
handled. I can default it to one specific set of parameters but allow for
the addition of options if needed.

I'm looking into the DDBJ format as well.


Thanks.

Bill



On 10/9/07, Tom Knight <tk at csail.mit.edu> wrote:
>
> The accession number is what is normally listed in journal articles.
> Version numbers are usually ignored, with the latest version being
> accessed.
>
> You probably *do* want to handle genome accession numbers, which have a
> different format, such as NC_006055.
>
> We may want support for EMBL and DDBJ numbers as well.  What do people
> think?
>
> On Oct 9, 2007, at 6:55 PM, Bill F wrote:
>
> > Accession Numbers and NCBI Lookup for Biblio Extension to OpenWetWare
> >
> > I'm looking into adding GenBank Accession Number lookup, a feature
> > which has been mentioned in the past. To do this, I need to know what
> > the set of information from GenBank would be that people would like to
> > see available.
> >
> > This is a cop of the the current comment on the Software/Features page:
> > (http://openwetware.org/wiki/OpenWetWare:Software/Feature_requests )
> >       •       Initially, this might be just an extension to Biblio to
> allow
> > referencing by accession number. Eventually, this could pull in info
> > from databases.
> >       •       See also
> > http://blogs.nature.com/wp/nascent/2007/07/scientific_blogging_p
> >
> > NCBI has an example of the full record they maintain:
> >
> >
> > http://www.ncbi.nlm.nih.gov/Sitemap/samplerecord.html
> >
> > Would a pointer to a similar page for a specific accession number be
> > what's needed?
> >
> > The actual accession number for the example record is:
> >
> > "U49845".
> >
> > There's an additional version number on he next line:
> >
> > "U49845.1 GI:1293613".
> >
> >  Does the version number generally get used in citations or is the
> > Accession Number adequate?
> >
> > Using the Accession number, I can point the Biblio reference to the
> > NCBI page (similar to the example) for that particular number. Is the
> > version number also needed?
> >
> >
> > Thanks.
> >
> > Bill Flanagan
> > OpenWetWare.org
> >
> >
> >
> > _______________________________________________
> > OpenWetWare Steering Committee Mailing List
> > sc at openwetware.org
> > http://mailman.mit.edu/mailman/listinfo/oww-sc
>
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