We’re holding an Ensembl Perl API course at the Genome Campus in the UK in April. The course give you chance to learn how to access the database directly from the people who produce the databases and write the APIs themselves. It is aimed at bioinformaticians and wet-lab scientists who are familiar with Object Oriented Perl.

This four-day course costs only £140, which includes daily transport to the campus from Cambridge city centre and refreshments (the fee is to cover only these expenses).

Please visit the course page for more details on the content and how to apply.

We’re always looking to improve Ensembl to make your research easier. To do this, we’re looking to find out more about you, how you use Ensembl and what you find useful or would like to see improved. The survey should take no more than 10 min. If you’d like to help make Ensembl better, please click on the link below:

Ensembl 90 is scheduled for August 2017 and it’s set to be our biggest release ever in terms of new genome annotation. Here’s what you can look forward to:

New assemblies, gene sets and annotations

  • Annotation of 15 rodent genomes, including three updates to old genomes:
    • Brazilian guinea pig
    • Chinese hamster
    • Damara mole rat
    • Degu
    • Golden Hamster
    • Guinea Pig (update)
    • Kangaroo rat (update)
    • Lesser Egyptian jerboa
    • Long-tailed chinchilla
    • Naked mole-rat – we have two different assemblies for naked mole-rat so you can keep working with your preferred genome
    • Northern American deer mouse
    • Prairie vole
    • Squirrel (update)
    • Upper Galilee mountains blind mole rat
  • Bringing in annotation of the well-used rodent cell-line, Chinese Hamster Ovary, and two mouse species, Ryukyu mouse and Shrew mouse.
  • Annotation on the latest Pig genome assembly, Sscrofa11.1
  • Updating the Human gene set to GENCODE 27.
  • Updating the Mouse gene set to GENCODE M15.
  • Adding transcript models from RNA-seq to the gene database and pri-miRNAs to the otherfeatures database in Zebrafish.

Other updates and highlights

  • Updating our human variation database with:
    • COSMIC 81 somatic variants
    • HGMD 2016.4
    • dbSNP 150
    • DGVa structural variants
    • TopMed in GRCh37
    • Phenotypes from NHGRI-EBI GWAS, OMIM, ClinVar, UniProt, Cosmic Gene Census, DDG2P, MIM Morbid and Orphanet
  • In other species we also have variation updates as follows:
    • DGVa in Cow, Dog and Mouse
    • Phenotype updates from relevant databases in Cat, Chicken, Chimpanzee, Cow, Dog, Horse, Macaque, Mouse, Pig, Rat, Sheep, Turkey and Zebrafish
  • Updating our microarray probe mappings in:
    • C.intestinalis
    • Caenorhabditis elegans
    • Chicken
    • Chimpanzee
    • Cow
    • Dog
    • Fruitfly
    • Human
    • Macaque
    • Mouse
    • Mouse 129S1/SvImJ
    • Mouse A/J
    • Mouse AKR/J
    • Mouse BALB/cJ
    • Mouse C3H/HeJ
    • Mouse C57BL/6NJ
    • Mouse CAST/EiJ
    • Mouse CBA/J
    • Mouse DBA/2J
    • Mouse FVB/NJ
    • Mouse LP/J
    • Mouse NOD/ShiLtJ
    • Mouse NZO/HlLtJ
    • Mouse PWK/PhJ
    • Mouse SPRET/EiJ
    • Mouse WSB/EiJ
    • Pig
    • Platypus
    • Rabbit
    • Rat
    • Saccharomyces cerevisiae
    • Xenopus
    • Zebrafish

For more details on the declared intentions, please visit our Ensembl admin site. Please note that these are intentions and are not guaranteed to make it into the release.