[ensembl-dev] Declaration of Intentions for Ensembl release 111 and Ensembl Genomes release 58

[Wolf Beat]

Thank you for the answer.
The question though is, does the GRCH37 GFF file contain the MANE_SELECT tag for the transcripts that do match?

Kind regards

Beat Wolf




Dr Beat Wolf, PhD ▪ Assistant Professor ▪ Member of iCoSys Institute
University of Applied Sciences and Arts Western Switzerland ▪ Pérolles 80 ▪ CH-1700 Fribourg
Member of University of Applied Sciences of Western Switzerland
https://www.heia-fr.ch<https://eia-fr.ch/> ▪ <http://humantech.institute/> https://icosys.ch/

________________________________
Von: Jose Gonzalez <jmgonzalez at ebi.ac.uk>
Gesendet: Donnerstag, 14. September 2023 11:02
An: Ensembl developers list <dev at ensembl.org>; Wolf Beat <Beat.Wolf at hefr.ch>
Betreff: Re: [ensembl-dev] Declaration of Intentions for Ensembl release 111 and Ensembl Genomes release 58

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Hi Beat,


As far as I know, the only update is the RefSeq annotation in our GRCh37 otherfeatures database, which has been imported using the file below:
https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/001/405/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_genomic.gff.gz

The Ensembl GRCh37 annotation hasn't been updated, so only a fraction of the RefSeq MANE v1.0 transcripts will be exactly matched by Ensembl transcripts.


Thanks,
Jose



On 13/09/2023 15:31, Wolf Beat wrote:
The mane 1.0 inclusion into grch37 sounds great. Related to this, will the gff file for grch37 also include this information? I know the grch38 does already do that.

Kind regards

Beat Wolf





Dr Beat Wolf, PhD ▪ Assistant Professor ▪ Member of iCoSys Institute
University of Applied Sciences and Arts Western Switzerland ▪ Pérolles 80 ▪ CH-1700 Fribourg
Member of University of Applied Sciences of Western Switzerland
https://www.heia-fr.ch<https://eia-fr.ch/> ▪ https://icosys.ch/

________________________________
Von: Dev <dev-bounces at ensembl.org><mailto:dev-bounces at ensembl.org> im Auftrag von Benjamin Moore <bmoore at ebi.ac.uk><mailto:bmoore at ebi.ac.uk>
Gesendet: Mittwoch, 13. September 2023 16:15
An: Ensembl developers list <dev at ensembl.org><mailto:dev at ensembl.org>
Betreff: [ensembl-dev] Declaration of Intentions for Ensembl release 111 and Ensembl Genomes release 58

Dear all,

Ensembl release 111 and Ensembl Genomes release 58 are scheduled for November 2023.

Please find the summary of the declarations of intentions in our blog:
https://www.ensembl.info/2023/09/13/whats-coming-in-ensembl-111-ensembl-genomes-58/

As with all releases, please note that these are intentions and are not guaranteed to make it into the releases.

Best wishes

Ben
On behalf of the Ensembl team

--
Dr. Ben Moore (he/him)
Ensembl Outreach Manager

European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus
Hinxton
Cambridge
CB10 1SD
UK

bmoore at ebi.ac.uk<mailto:bmoore at ebi.ac.uk>
+44 (0)1223 494265



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--
Dr Jose M. Gonzalez
GENCODE Bioinformatician (Genome Interpretation Team)
European Bioinformatics Institute (EMBL-EBI)
Wellcome Genome Campus
Hinxton, CB10 1SD, UK
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