We have made updates to the Rattus norvegicus (Norway rat) gene annotation. The GRCr8 assembly is now the reference and mRatBN7.2 has been enhanced with manual annotation.
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Cool stuff Ensembl VEP can do: reduce the number of human transcripts you need to consider without missing results!
Ensembl VEP calculates the location and likely impact of variant alleles on genes, producing extensive annotations, but there are now a huge number of human transcripts to consider. The new GENCODE Primary transcript set streamlines the variant annotation process, saving time in both analysis and results filtering/ interpretation.
Continue readingNew data available via Ensembl Beta
Following the freezing of Ensembl Rapid Release, we have added new data to the new Ensembl Website – Ensembl Beta – https://beta.ensembl.org/.
Continue readingWhat’s coming in Ensembl release 114 / Ensembl Genomes 61?
Ensembl 114 and Ensembl Genomes 61 are expected in March 2025. Check out what we’re up to, although we can’t guarantee everything listed here will make it into the final release.
Continue readingIntegration of AlphaMissense scores into Ensembl
We’re excited to announce the integration of AlphaMissense pathogenicity scores into Ensembl! The display of AlphaMissense data in Ensembl and other EMBL-EBI resources aims to empower scientists to gain new insights, expand the exploration of genetic variation and the tolerance to change of different regions in proteins.
Continue readingEnsembl Bacteria releases new annotation for all of its genomes
In Ensembl 110 / Ensembl Genomes 57, we have introduced in-house prokaryotic gene annotation across genomes available in Ensembl Bacteria.
Continue readingExpanding Ensembl Metazoa gene trees
As of Ensembl 110 / Ensembl Genomes 57, gene trees within Ensembl Metazoa have been expanded to cover 275 species by dividing them into 3 taxonomic clade sets: Metazoa, Protostomia, and Insecta. In addition, the release and update frequency of metazoan gene trees will change, with Metazoa and Protostomia being updated in every even-numbered release and Insecta being updated in every odd-numbered release. Read on to find out more about this update.
Continue readingThe human pangenome: a more diverse human reference genome in Ensembl
The human pangenome, a high-quality collection of reference human genome sequences that better captures diversity from different human populations compared to the current human reference genome, is now available through Ensembl.
Continue readingNew interactions display on Ensembl gene pages
In Ensembl release 109, we introduce a new display that integrates experimentally verified interactions between genes, proteins, mRNA or other small molecules onto our gene pages. This adds an additional layer of data that enables deeper analysis into the ways species interact in a variety of contexts. So far, we have imported curated interactions from PHI-base, HPIDB, and PlasticDB for which we could find exact protein matches in Ensembl.
Continue readingPolyPhen-2 and SIFT scores are changing in release 109
We are updating SIFT and PolyPhen-2 predictions of missense variant deleteriousness in the Ensembl browser and Ensembl VEP with the new release 109. We have recalculated all scores using newer software versions, updating PolyPhen-2 from 2.2.2 to 2.2.3 and SIFT from version 5.2.2 to 6.2.1. When we update software and reference data versions, we expect to see changes in some predictions. This is a guide as to what you can expect.
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