Mountain View
biomedical and healthCAre Data Discovery Index Ecosystem
help Advanced Search
Title: Coronary artery disease-associated genotype data in Mediterranean populations      
dateReleased:
11-24-2016
description:
We wanted to explore the genomic regions 1p13, 1q41, 9p21 and 10q11, which are among the labeled “top 12 golden loci” linked to coronary artery disease (CAD) risk, in order to see whether their geographic variation could be explained by demographic effects. To do this, we have genotyped these risk regions in a set of Mediterranean populations. Genomic DNA was extracted from blood cells using a Blood Midi kit (Omega Biotek, USA) according to manufacturer's procedures. DNA samples were genotyped for a combined set of 366 SNPs using an Illumina Custom GoldenGate Panel. SNPs were selected as a representative set of the common variation in the four genomic regions, according to the following criteria: i) average coverage of 1 SNP every 1.5 kb, ii) minor allele frequency (MAF) higher than 0.05 in CEU and TSI HapMap populations, iii) given priority to markers not in linkage disequilibrium (LD) (r2<0.8) in European populations, and iv) prioritizing markers previously associated with CAD. These criteria were applied giving preference to tag SNPs.
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-MTAB-5265
refinement:
raw
dateSubmitted:
09-19-2013
keywords:
functional genomics
dateModified:
11-24-2016
availability:
available
types:
gene expression
name:
Homo sapiens
ID:
A-MTAB-603
name:
Illumina GoldenGate Custom SNP genotyping microarray - 366 SNPs associated with coronary artery disease
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-MTAB-5265/E-MTAB-5265.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-MTAB-5265/E-MTAB-5265.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress

Feedback?

If you are having problems using our tools, or if you would just like to send us some feedback, please post your questions on GitHub.