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[Arabidopsis] Re: CATMA and other arabidopsis microarray alignments?

Dan Bolser via arab-gen%40net.bio.net (by dbolser from ebi.ac.uk)
Thu Feb 15 05:27:33 EST 2018


I guess I'll go with this one:
https://www.ebi.ac.uk/arrayexpress/arrays/A-GEOD-9553


On 14 February 2018 at 14:57, Dan Bolser <dbolser from ebi.ac.uk> wrote:

> Hi,
>
> I'm looking to update the CATMA probe alignments in Ensembl Plants. Where
> can I get the 'latest', 'definitive' probe sequences from?
>
> Seems several likely projects are in the archives:
> https://www.ebi.ac.uk/arrayexpress/arrays/browse.html?keywords=CATMA
>
> and I guess this is the official website:
> http://www.catma.org/
>
> but I'm not sure which file contains the 'official' sequences and unique
> probe names...
>
> Any help / guidance would be greatly appreciated.
>
> On a related note, we're currently updating all our probe mappings in
> Ensembl Plants (there is a marginal cost to adding more to our alignment
> pipeline). Which other arabidopsis probe-sets should I align (other than
> Affy / Agilent probes)? Which other probe-sets should I align for any
> species (other than Affy / Agilent probes)?
>
>
> Many thanks,
> Dan.
>


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