Ensembl Genomes Release 14 Notes

General

  • Released on 29th May 2012
  • Updated to Ensembl 67 software
  • New Pan Compara database (including Solanum lycopersicum)
  • Updated and standardised metadata
  • Updated use of meta keys for names (as for Ensembl 67)
  • Annotation of assemblies with INSDC identifiers

Metazoa

  • New core database for Heliconius melpomene
  • New core database for Danaus plexippus
  • Updated assembly metadata to use accessions and names from the INSDC Assembly Database (where available)
  • Updated core database with new assembly for Caenorhabditis briggsae
  • Updated core database with new gene set for Caenorhabditis elegans
  • Updated core database with new gene set for Aedes aegypti
  • Updated core database with new gene set for Culex quinquefasciatus
  • Updated core database with new gene set for Ixodes scapularis
  • Updated DNA compara with both LASTZ and translated BLAT pairwise alignments between C.elegans and  the other 6 nematode species.
  • Updated peptide compara
  • Updated biomart

Bacteria

  • Updated assembly metadata to use accessions and names from the INSDC Assembly Database (where available)

Protists

  • New core database for Hyaloperonospora arabidopsidis
  • New core database for Albugo laibachii
  • New core database for Entamoeba histolytica
  • New core database for Tetrahymena thermophila
  • Updated assembly metadata to use accessions and names from the INSDC Assembly Database (where available)
  • Projection of manual GO annotation from D. discoideum to other species based on protein homology
  • New DNA compara database containing pair wise alignments for Peronosporales and Trypanosomatidae
  • New DNA compara database containing synteny for Trypanosomatidae
  • Updated synteny compara for Plasmodia and diatoms
  • Updated peptide compara database
  • Updated biomarts

Fungi

  • New core database for Sclerotinia sclerotorium
  • New core database for Botrytis conerea
  • Updated core database for Schizosaccharomyces pombe
  • Updated assembly metadata to use accessions and names from the INSDC Assembly Database (where available)
  • Projection of manual GO annotation from S. pombe and S. cerevisiae to other species based on protein homology
  • Updated EST alignments for Magnaporthe oryzae
  • Updated peptide compara database
  • Updated biomarts

Plants

  • New core database for:
  • Updated core database for Brassica rapa to include updated xrefs (including projected GO terms) and ncRNA gene predictions.
  • New otherfeatures database for Brassica rapa to include updated EST, BAC, and arabidopsis gene mappings
  • Updated Brachypodium distachyon to include wheat genespace alignments as additional BAM tracks.
  • Added variation data for for:
  • Updated BioMarts
  • Updated assembly metadata to use accessions and names from the INSDC Assembly Database (where available).
  • Updated DNA compara database containing pair-wise alignments for Oryzeae.
  • Updated peptide compara.