Pacific Islands RHD Genetics Network: Data Access

The genotype and sequence data produced by the network have been deposited in the European Genome-phenome Archive (Accession Number: EGAS00001001881).

Accessing the data

Access to individual-level genotype data is available by application to the Network's Data Access Committee. Users will be granted access subject to the terms stated in the Data Access Agreement. Further information about the application process is detailed in the Guidance Document. The Application Form is also available to download. To find out more or apply please contact Dr Tom Parks (Email).

Available data

1. Array data

Two different genotyping platforms were used in the study. First the Illumina HumanCore-24 BeadChipTM (Illumina Inc., USA) was used to genotype entire collection. Second the HumanOmniExpressExome-8 BeadChipTM (Illumina Inc., USA) was used to genotype 64 individuals reporting Kanak ancestry recruited in New Caledonia whose DNA was also whole-genome sequenced at low coverage and 64 individuals reporting iTaukei ancestry recruited in Fiji. The following quality-controlled datasets have been deposited at EGA:

Dataset Country Platform Samples Phenotype Restrictions on use Requirements for access
RHD_FJ_HC24 Fiji HumanCore-24 1389 Cases and controls Use in group A streptococcal disease research only Permission from the Fiji National Health Research Committee
RHD_FJ_OMNI Fiji OmniExpressExome-8 64 Cases and controls Use in group A streptococcal disease research only Permission from the Fiji National Health Research Committee
RHD_NC_HC24 New Caledonia HumanCore-24 821 Cases and controls Use in RHD research only No further permissions required for RHD-related research
RHD_NC_HC24 New Caledonia OmniExpressExome-8 64* Cases and controls Use in RHD research only No further permissions required for RHD-related research
RHD_SA_HC24 Samoa HumanCore-24 150+ Cases and controls Use in RHD research only Permission from the Samoa Ministry of Health Research Committee
OVGP_HC24 Various HumanCore-24 937 Controls No restrictions on use No further permissions required
*These individuals were also whole-genome sequenced at low-coverage. +Also includes individuals with borderline rheumatic heart disease and individuals with mild non-diagnostic valvulopathy who were excluded from main study.

2. Low-coverage Sequence data

Sixty-four individuals reporting Kanak ancestry recruited in New Caledonia were whole-genome sequenced using HiSeq® 2000 (Illumina Inc., USA) technology. The following dataset has been deposited at EGA:

Dataset Country Technology Samples Phenotype Restrictions on use Requirements for access
RHD_NC_SEQ New Caledonia HiSeq 2000 64* Cases and controls Use in RHD research only No further permissions required for RHD-related research
*These individuals were also genome-wide genotyped using the OmniExpressExome platform.