Question: (Closed) Reannotete/Compare data between ensembl releases but within the same assembly
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gravatar for mgdias.jose
17 months ago by
mgdias.jose0 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 17 months ago by WouterDeCoster38k • written 17 months ago by mgdias.jose0

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.

Cheers!

ADD REPLYlink modified 17 months ago • written 17 months ago by Emily_Ensembl18k
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