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News: Useful information about Ensembl release 77 mart databases
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gravatar for Thomas Maurel
3.1 years ago by
Thomas Maurel700
United Kingdom
Thomas Maurel700 wrote:

Dear all,

We are pleased to announce that the new Ensembl marts for release 77 are now live on www.ensembl.org.

You can change your host to access our most recent data:

  • ensembl_mart <- useMart(biomart="ENSEMBL_MART_ENSEMBL", host="www.ensembl.org", path="/biomart/martservice")
  • variation_mart <- useMart(biomart="ENSEMBL_MART_SNP", host="www.ensembl.org", path="/biomart/martservice")
  • regulation_mart <- useMart(biomart="ENSEMBL_MART_FUNCGEN", host="www.ensembl.org", path="/biomart/martservice")
  • vega_mart <- useMart(biomart="ENSEMBL_MART_VEGA", host="www.ensembl.org", path="/biomart/martservice")

 

Ensembl Genes 77    

  • Added new species Vervet-AGM (Chlorocebus sabaeus)
  • Added "Associated Gene Name" (internal name "external_gene_name") in the id list limit filter section
  • Renamed "Reference ID" to "Variation Name" and "Source description" to "Variation source description" in the Variation attribute section for germline and somatic. 
  • Renamed internal name:
    •  For the "Variation name" attribute from "external_id" to "variation_name"
    • For the "Variation Source" attribute from "source_name" to "germ_line_variation_source".
    • For the "Variation name" somatic attribute from "somatic_reference_id" to "somatic_variation_name"

Ensembl Variation 77

  • Optimized the somatic and germinal structural variation templates
  • Removed "Phenotype significance" (internal name "phenotype_significance") from the filter and attribute sections

Vega 57

  • Added new species Rat (rattus norvegicus)
  • Added "Associated Gene Name" (internal name "external_gene_name") in the id list limit filter section

A complete list of the changes in release 77 can be found at http://www.ensembl.org/info/website/news.html

 

Best Regards,

Thomas 

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