We’re pleased to announce the release of Ensembl 99, and the corresponding release of Ensembl Genomes 46. Along with updates of human gene annotation and variation data, we have a menagerie of new and updated vertebrate species in Ensembl plus a whole set of new plants, mosquitos and flies in Ensembl Genomes.
Author: Ben (Outreach)
What’s coming up in Ensembl release 99?
Ensembl 99 (and Ensembl Genomes 46) are due out in December and we plan to include a bumper set of new and updated species. As with all releases, we cannot guarantee that anything listed here will make it into the final release.
Removal of ontology database patching SQL scripts from Ensembl repository in Ensembl 96
In the next release of Ensembl (Ensembl 96) we will remove our ontology database patching scripts from the main Ensembl repository.
There is now a dedicated module using the EBI OLS service to load Ensembl required ontologies. Considering this module is now in charge of loading the required data, the previous databases patches have been moved to the ols-ensembl-loader repository.
If you need to update your system with future patches, please now refer to the ols-ensembl-loader repository sql directory where files are already available.
Please contact the Ensembl Helpdesk if you have any questions or want to find out more about how this might affect your work.
Getting to know us: Guy from Ensembl Plants
Today we are meeting Guy, who works in the Plants team of Ensembl Genomes. He talks about how he came to Ensembl, his interests and experiences so far.
Update: Temporarily reduced Ensembl functionality- all services now restored
Due to a major loss of cooling incident at one of the EMBL-EBI data centres, there was reduced Ensembl functionality between Saturday 2nd February and Wednesday 6th February.
However, as of Wednesday 6th February, all Ensembl and Ensembl Genomes services have now been restored and are working as normal.
If you encounter any further issues, please report them to the Ensembl Helpdesk.
Thank you for your understanding and patience while we worked to fully restore our services.
Regulatory build update for Ensembl 95
A brand new regulatory build for the human GRCh38 and GRCh37 assemblies was released in Ensembl 95 earlier this week. The new regulatory build incorporates data for 55 new and 38 updated epigenomes from the ENCODE project. So what are the differences from the previous regulatory build?
Ensembl Genomes 42 is out!
We’ve just released Ensembl Genomes 42, with new and updated plant species, including soya and tomato, as well as three new species for Ensembl Metazoa.
Ensembl 95 is out!
The latest version of Ensembl, release 95, is out. This release brings a brand new human regulatory build for GRCh37 and GRCh38, incorporating new data from the ENCODE and Roadmap epigenomics project, plus an update to the mouse GENCODE gene set. We’ve also got a whole host of new vertebrate species, updated genome assemblies for some important agricultural species and the brand new protein structure viewer.
What’s coming in Ensembl 95 / Ensembl Genomes 42
We’re planning to release the next versions of Ensembl and Ensembl Genomes in December.
We’ve got some exciting new genomes, including polar bear, as well as updated genome assemblies for three important agricultural species. We’ve also got a new regulatory build for the human GRCh38 and GRCh37 assemblies and a brand new protein structure variation view.
Update to Perl and BioPerl in Ensembl
From Ensembl 93 onwards, we plan to recommend newer versions of Perl (5.14- 5.26) and BioPerl (1.6.924) when using the Ensembl Perl API. This may affect pipelines which employ the Ensembl Perl API, since we will no longer actively support older versions of Perl and BioPerl.