Question: (Closed) Reannotete/Compare data between ensembl releases but within the same assembly
gravatar for mgdias.jose
2.8 years ago by
mgdias.jose10 wrote:

I have transposons data for mouse organised in the following manner (txt)

chr start end hit 1 111 130 geneXXX 2 1546 1867 intergenic 3 123 234 geneYYY

this is for the assembly 38, Ensembl release 73.

I want to compare it now with the release 90 of Ensembl (which is still assembly 38 of mouse) to confirm if the hits of the transposon are still accurate with most updated version. (e.g. to know if the transposon on chr 2 is still hitting on an intergenic region or if that region is now attributed to a gene. Or if the region in chr 3 where my transposon hit is still annotated as geneYYY and so on).

Are there any (semi) automated tools to do it? Which would be the best approach?

Thank you !

ADD COMMENTlink modified 2.8 years ago by WouterDeCoster44k • written 2.8 years ago by mgdias.jose10

Hello mgdias.jose!

We believe that this post does not fit the main topic of this site.

Duplicate of previous question

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.


ADD REPLYlink modified 2.8 years ago • written 2.8 years ago by Emily_Ensembl21k
Please log in to add an answer.
The thread is closed. No new answers may be added.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1013 users visited in the last hour