[BioMart Users] Useful information about Ensembl release 61 mart databases

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[BioMart Users] Useful information about Ensembl release 61 mart databases

Rhoda Kinsella
Hi,
The new Ensembl marts for release 61 are live on www.ensembl.org and
www.biomart.org. The following improvements and modifications have been
made:

Ensembl Genes 61:

Addition of new species Meleagris gallopavo (Turkey)
Anolis carolinensis new assembly (AnoCar2.0)
C. elegans updated to WS220
LRGs added to the Human region filter
Added miRBase filters and attributes for D. rerio
VARIATION FILTER->Variation Type now has an "&" in place of a "," for compound filters as this caused 
issues for the biomart code which resulted in incorrect filtering.
CDS start (within cDNA) and CDS end (within cDNA) added to the Sequence attribute page-> Transcript Information section
CDS start and end (exons) added to the Sequence attribute page-> Exon Information section

The following filters and attributes have been removed:
HGNC_curated_gene + transcirpt
HGNC_automatic_gene  + transcript
MGI_curated_gene + transcript
MGI_automatic_gene + transcript


Ensembl Variation 61:

Added new species Monodelphis domestica (oppossum) and Felis catus (cat).
Updated human to dbSNP 132
Updated Tetraodon (pufferfish) to dbSNP 132 and Taeniopygia guttata (zebrafinch) to dbSNP 131
GENE ASSOCIATED VARIATION FILTERS->Consequence Type now has an "&" in place of a "," for compound filters as this caused 
issues for the biomart code which resulted in incorrect filtering.

Ensembl Regulation 61:

Certain attributes are now selected as default on each of the three attribute pages.

Vega 41:

Added Danio rerio Zv9 to vega mart


Regards
Rhoda


Rhoda Kinsella Ph.D.
Ensembl Bioinformatician,
European Bioinformatics Institute (EMBL-EBI),
Wellcome Trust Genome Campus, 
Hinxton
Cambridge CB10 1SD,
UK.


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