Ensembl will retire Microarray Probe Mapping annotation in 2026.
Tag: regulation
Ensembl 113 has been released!
We are pleased to announce the release of Ensembl 113, and the corresponding release of Ensembl Genomes 60. This release brings major gene and regulatory feature annotation updates in Homo sapiens (Human) and Mus musculus (Mouse). We have updated existing genomes and added additional genomes across the different Ensembl sites, including livestock breeds in Ensembl, three new species in Ensembl Plants and 26 new species in Ensembl Metazoa. Can’t find the species you are looking for? Don’t forget that new and exciting genome assemblies and annotations are continuously added to Ensembl Rapid Release!
Continue readingWhat’s coming in Ensembl release 113 / Ensembl Genomes 60?
We expect to release Ensembl 113 and Ensembl Genomes 60 in September October 2024. Below is a list of updates that we are hoping to include in the upcoming release. However, please note that we cannot guarantee everything listed here will make it into the final release.
Getting to know us: Gabriela from Ensembl Regulation
In February, we talked to Gabriela Alejandra Merino from the Ensembl Regulation team. Before joining EMBL-EBI, Gabriela worked on protein function prediction. She is now involved in producing regulatory annotations for Ensembl. Outside of work, Gabriela is very active and participates in swimming competitions. Read on to get to know Gabriela and her work.
Continue readingRemoving Regulatory Evidence from BioMart
Human and Mouse Regulatory Evidence datasets will be retired from the Regulation BioMart in Ensembl 107.
Continue readingCool stuff the Ensembl VEP can do: external gene regulation annotation
The interpretation of non-coding variants is more challenging than that of coding variants as less prediction methods and reference data are available. On top of the annotation provided for human and mouse in the Ensembl Regulatory Build, the Ensembl Variant Effect Predictor (VEP) also integrates two other human-specific datasets providing information about how variants can affect gene expression. The plugins, satMutMPRA and FunMotifs, are available for use with command-line VEP. One provides detailed information on the impact on expression of variants in the regulatory regions of disease-associated genes; the other an alternative set of genome-wide transcription factor binding motifs.
Ensembl 97 and Ensembl Genomes 44 have been released!
Ensembl 97 and Ensembl Genomes 44 have been released! In this release you’ll find many new species, including some hybrid livestock, as well as important changes to gene sets for human and mouse and a new update to the human Regulatory Build.
Read on to explore the full details.
Ensembl 96 and Ensembl Genomes 43 are out!
These releases are huge in many respects, so it was difficult to decide which news to put first! Let’s start with some exciting news from our annotators.Continue reading
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?
Cool things the Ensembl VEP can do: regulatory feature annotation
Most of the time when we talk about variant annotation, we talk about the effects of variants on genes, but did you know that the VEP can also tell you how variants affect the genomic features that regulate gene expression, such as promoter and enhancers?