[Inparanoid] Adding a database to the Inparanoid web interface

[Megan Rees]

Yes - I was a bit puzzled by that as the database list doesn't indicate that it is the reference strain but I tried a practice search against another species and when clicking on the Mtb proteins identified the Uniprot link takes me to the protein for M.tb H37Rv.


So could I also then request Mycobacterium tuberculosis h37Rv to also be added the RefSeq identifier is  NC_000962.3<http://www.ncbi.nlm.nih.gov/nuccore/NC_000962.3> ?


Thanks Megan


________________________________
From: InParanoid <inparanoid-at-sbc.su.se-bounces at lists.su.se> on behalf of Erik Sonnhammer <erik.sonnhammer at scilifelab.se>
Sent: Tuesday, October 6, 2015 11:50 AM
To: inparanoid-at-sbc.su.se at lists.su.se
Subject: Re: [Inparanoid] Adding a database to the Inparanoid web interface

On 10/06/2015 04:25 PM, Megan Rees wrote:

Thank you Erik,


I would like to request the addition of

Mycobacterium kansasii ATCC 12478 including its plasmid. These have the Refseq identifiers of NC_022663.1<http://www.ncbi.nlm.nih.gov/nuccore/NC_022663.1> and NC_022654.1<http://www.ncbi.nlm.nih.gov/nuccore/NC_022654.1>. I can send you fasta files if that is helpful.

Can I assume that the Mycobacterium tuberculosis is the standard reference strain H37Rv?

I guess not - clicking on the Uniprot link in the InParanoid Summary gives

Strains i<http://www.uniprot.org/help/taxonomy#strain>  > 1254
> An03
> Canetti
> Isolate 50410, 50410
> Mt103

/Erik


Regards

Megan


________________________________
From: InParanoid <inparanoid-at-sbc.su.se-bounces at lists.su.se><mailto:inparanoid-at-sbc.su.se-bounces at lists.su.se> on behalf of Erik Sonnhammer <erik.sonnhammer at scilifelab.se><mailto:erik.sonnhammer at scilifelab.se>
Sent: Tuesday, October 6, 2015 11:16 AM
To: inparanoid-at-sbc.su.se at lists.su.se<mailto:inparanoid-at-sbc.su.se at lists.su.se>
Subject: Re: [Inparanoid] Adding a database to the Inparanoid web interface

Sure, but I can't estimate when it will appear.

Erik

On 10/06/2015 04:12 PM, Megan Rees wrote:

How can I request the addition of another organism to the Inparanoid web interface so that I can perform comparisons?


Thanks Megan



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