Category Archives: Uncategorized

New Pre! sites for olive baboon, sheep and common shrew

New Pre! sites have been released for three species: common shrew (Sorex araneus), olive baboon (Papio anubis) and sheep (Ovis aries). The common shrew assembly SorAra2.0 (GCA_000181275.2) was submitted by the Broad Institute. It consists of 12,845 unplaced scaffolds comprised … Continue reading

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API course tomorrow

Due to some last minute cancellations, we have spaces on our Ensembl API course in Cambridge, tomorrow (3rd April) until Friday (5th April). If you’re in Cambridge, know Perl and would like to learn about using the Ensembl Perl API, … Continue reading

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Comparative Genomics Project Leader

Are you interested in joining the Ensembl project based in the UK, near Cambridge? The Comparative Genomics team currently has an open position for a Project leader. The Ensembl Compara team develops new and established methods for: whole genome sequence alignment, assignment of … Continue reading

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File-based tracks – scheduled downtime

Owing to urgent storage maintenance work at the Wellcome Trust Sanger Institute some Ensembl data will be unavailable on the morning (UK time) of Monday 14th January, as it is served from data files on disk rather than from databases. … Continue reading

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Announcing Limited Ensembl Service for the Holidays

The Wellcome Trust Genome Campus as well as the Sanger Institute and the EBI are closed for the holiday period between 23 December and 2 January. Ensembl browsers (www.ensembl.org, useast.ensembl.org. uswest.ensembl.org. and asia.ensembl.org) along with underlying databases will remain accessible … Continue reading

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What’s coming in Ensembl release 70

Ensembl release 70 is scheduled for release in January 2013. We expect this release to include, among other things: Updated patches for the Human assembly (GRCh37.p10) and inclusion of patches for Mouse assembly (GRCm38.p1). Imported HGMD-PUBLIC data from release 2012.3 … Continue reading

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Ensembl workshops in the Western US 2013

The Ensembl Outreach team is currently looking into the possibility of giving browser and / or API workshops in the Western US in 2013. Ideally, this would be after the Plant and Animal Genome Conference in San Diego (12-16 January), … Continue reading

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What’s coming in Ensembl release 69

Ensembl release 69 is scheduled for release in October. We expect this release to include, among other things: The latest sequence variants from dbSNP build 137 for human New DNA methylation data from multiple human and mouse cell lines including … Continue reading

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Variation consequences

From release 68, we are using Sequence Ontology (SO) terms for the variation consequences, in an effort to standardise terms across the different browsers, making it easier for users to do a cross comparison of variation annotation.  The UCSC Genome Browser … Continue reading

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SIFT and PolyPhen predictions for human Ensembl and RefSeq proteins

For release 67 we changed how we store the protein function predictions from SIFT and PolyPhen so that they also can be used for more than just Ensembl transcripts, including RefSeq transcripts. We use these tools to compute the predicted effect of every … Continue reading

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