GWA data
Details of the GWA datasets generated from the 1958BC are available from the European Genome-phenome Archive and are summarised in table below.
Click on the sample sizes shown in the summary table to be transferred to the EGA site for that dataset.
Chip or Assay Used | N | Study | SNPs |
---|---|---|---|
Affymetrix 500K | 1504 | 1 | 490032 |
Infinium HumanHap 550K v1.1 | 1436 | 1 | 555174 |
Infinium HumanHap 550K v3 | 2604 | 3 | 561303 |
Illumina 15K Custom chip | 1504 | 1 | 9803 |
Affymetrix v6 | 3000 | 2 | 934967 |
Illumina 1.2M | 3000 | 2 | 1157986 |
Illumina HumanEXome-12v1_A-GenCall, zCall | 5841 | 5 | 579252 |
Illumina Human 660-Quad | 872 |
4 | 582892 |
Illumina ImmunoBeadShip – Illuminus, GenoSNP | 6812 | 6 | |
Dynal RELI SSO assay | 6662 | HLA | |
Exome | 5964 | - | 247849 |
Key to Study Controls 1-6:
EGA study reference & further information:
[1] WTCCC1: Wellcome Trust Case control Consortium 1
[2] WTCCC2: Wellcome Trust Case Control Consortium 2
[3] T1DGC: Type 1 Diabetes Genetics Consortium
[4] GABRIEL: Large-Scale Genome-Wide Association Study of Asthma
[5] METABOCHIP: Association Studies using the metabochip array
[6] IMMUNOCHIP: Coeliac Disease Immunochip dataset
Application and Access (GWA data)
All of the above data can be accessed in isolation (i.e. not linked to any other data sets - including each other - or to any phenotype data) by applying to the data access committee on the relevant EGA webpage. In most cases this is datasharing@sanger.ac.uk. If the above data is required to be linked to other data (including multiple GWA data listed above) then an application to METADAC is required. This is outlined on the data access page.