[ensembl-dev] Ensembl with Human Patches Question
Susan Fairley
sf7 at sanger.ac.uk
Wed Apr 4 14:42:17 BST 2012
Hi Will,
We align human ESTs to the primary chromosomes as part of the build for
the primary assembly.
For the patches, we use a different 'lightweight' process, which does
not include aligning ESTs. Consequently, we have no EST alignments to
the patches and don't display them on the website.
I hope that helps to explain things. Please let me know if you have any
further questions.
Kind regards,
Susan.
Will Chow wrote:
> Hi,
>
> I'm not sure if this is a core code or a webcode thing, or perhaps I'm
> using this wrong, hence why I'm submitting this here and not one of the
> rt queues.
> This was found via the ensembl browser specifically involving the human
> patches. For example the first patch on chr 1.
>
> Turning on the Human EST and marker Track:
>
> http://www.ensembl.org/Homo_sapiens/Location/View?db=core;r=1:31872759-32017063
>
>
> The track reveals the features under the clone AC114494.
> <http://www.ebi.ac.uk/ena/data/view/AC114494>
>
> If I were to jump to the patched region via the assembly exceptions track.
>
> http://www.ensembl.org/Homo_sapiens/Location/View?db=core;r=HG989_PATCH:31872759-32024309
>
>
> Under the same clone, AC114494, these features don't appear.
>
> I would've thought the features would appear here as well. Can someone
> shed some light on this?
>
> thanks
>
> Will
>
> _______________________________________________
> Dev mailing list Dev at ensembl.org
> List admin (including subscribe/unsubscribe):
> http://lists.ensembl.org/mailman/listinfo/dev
> Ensembl Blog: http://www.ensembl.info/
More information about the Dev
mailing list