Hi Tesfaye, In BioMart Martview (www.biomart.org/biomart/martview) you can query Ensembl variation data by selecting the following:
Database: Ensembl variaiton 63 Dataset relevant to your species of interest (e.g. Homo sapiens Variation (dbSNP 132;ENSEMBL) When you do that, you will see a selection of Filters and Attributes. For example, under the GENE ASSOCIATED VARIATION FILTERS, you can select the Consequence type to include only synonymous SNPs, non-synonymous SNPS, and others (you can select multiple with the ctrl key) Finally, select Attributes (eg. SNP ID, location, Ensembl Gene id, etc). Click on Results to view the data. Please let me know if you have other questions. Elena Rivkin, PhD Outreach and Training Coordinator, Informatics and Bio-computing Ontario Institute for Cancer Research MaRS Centre, South Tower 101 College Street, Suite 800 Toronto, Ontario, Canada M5G 0A3 Tel: 647-258-4316 Toll-free: 1-866-678-6427 www.oicr.on.ca This message and any attachments may contain confidential and/or privileged information for the sole use of the intended recipient. Any review or distribution by anyone other than the person for whom it was originally intended is strictly prohibited. If you have received this message in error, please contact the sender and delete all copies. Opinions, conclusions or other information contained in this message may not be that of the organization. From: Tesfaye Mersha <[email protected]<mailto:[email protected]>> Date: Thu, 1 Sep 2011 10:07:42 -0400 To: "[email protected]<mailto:[email protected]>" <[email protected]<mailto:[email protected]>> Subject: [BioMart Users] dbSNPs with functional category Hi I am looking SNP database which link SNPs with its functional classification like synonymous SNP, nonsynonymous SNP and other types. I wish if you send me any Ensembl help resources as well as databases. Thanks, Tes Tesfaye B. Mersha, Ph.D. Assistant Professor Cincinnati Children's Hospital Medical Center Department of Pediatrics University of Cincinnati phone 513-803-2766 [email protected]<mailto:[email protected]>
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