Begin forwarded message:
> From: Rhoda Kinsella <[email protected]>
> Date: 21 February 2011 12:49:33 GMT
> To: [email protected], bioc bioconductor <[email protected]>
> Subject: [BioMart Users] Useful information about Ensembl release 61 mart
> databases
>
> 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.
>
> _______________________________________________
> Users mailing list
> [email protected]
> https://lists.biomart.org/mailman/listinfo/users
--
David Withers
School of Computer Science, University of Manchester,
Oxford Road, Manchester, M13 9PL, UK.
+44 (0)161 275 0683
------------------------------------------------------------------------------
The ultimate all-in-one performance toolkit: Intel(R) Parallel Studio XE:
Pinpoint memory and threading errors before they happen.
Find and fix more than 250 security defects in the development cycle.
Locate bottlenecks in serial and parallel code that limit performance.
http://p.sf.net/sfu/intel-dev2devfeb
_______________________________________________
taverna-users mailing list
[email protected]
[email protected]
Web site: http://www.taverna.org.uk
Mailing lists: http://www.taverna.org.uk/about/contact-us/
