What’s coming in Ensembl release 84

Ensembl 84 is scheduled for March 2016 and includes: Updated gene sets and annotations Human: Incorporation of Blueprint epigenome data and methylation data Mouse: update to GENCODE M9 annotation Zebrafish: updated gene set, including manually annotated HAVANA annotation and RNAseq data update Continue reading What’s coming in Ensembl release 84

1000 Genomes phase 3 frequencies, genotypes and LD data

1000 Genomes phase 3 frequencies, genotypes and LD data

Ensembl Variation recently incorporated the latest versions of the dbSNP and 1000 Genomes datasets. While we are able to import all of the variant loci from phase 3 of the 1000 Genomes project, the vast amount of genotype data (2500 Continue reading 1000 Genomes phase 3 frequencies, genotypes and LD data

Drawing cis-interactions in Ensembl

Drawing cis-interactions in Ensembl

As we announced in our e80 release post, we rolled out a prototype display for cis-regulatory interactions, essentially arches connecting any two elements on the same chromosome. This was mainly designed to display your eQTL or Hi-C with little effort, based on the WashU Continue reading Drawing cis-interactions in Ensembl

dbSNP 142 and 1000 Genomes Phase 3

dbSNP 142 and 1000 Genomes Phase 3

Boom! Due to a somewhat catastrophic hardware failure during our production cycle for Ensembl release 79, we have only been able to release human dbSNP 142 incorporating 1000 Genomes phase 3 data on our GRCh37-based services (Web: grch37.ensembl.org, REST API: grch37.rest.ensembl.org, Continue reading dbSNP 142 and 1000 Genomes Phase 3

WiggleTools: a pocket calculator for very large datasets

WiggleTools: a pocket calculator for very large datasets

We are pleased to announce a new bioinformatics application, WiggleTools, described in a recent Application Note in Bioinformatics. It allows you to quickly and conveniently compute statistics across many (up to the hundreds) of genome-wide datasets. WiggleTools is first a data summary tool. It collapses Continue reading WiggleTools: a pocket calculator for very large datasets