H3Africa - Genomic and Environmental Risk Factors for Cardiometabolic Disease in Africans
|Study ID||Alternative Stable ID||Type|
Study Datasets 5 datasets.
Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data
These sequences were sequenced at the Broad on an Illumina HiSeqX at 30x -- PCR Free. The CRAMS and VCF are as produced by Broad. The VCFs produced were generated by the Broad using GATK.
AWI-Gen Phase 1 Population cross-sectional study of older adults (mostly between 40 and 60 years), men and women. Six study sites in four sub-Saharan African counties. Ghana, Burkina Faso, Kenya and South Africa. ~12,500 participants, some groups are missing data for specific variables. Questionnaire data (demography, health history, family health history, behaviour and infection data); anthropometry; laboratory assays on blood and urine.
This is human phenotype data for participants in a gut microbiome study. This data was collected at the same time as the stool samples used for the microbiome component. Participants were also part of the AWI-Gen Phase 1 main study. https://www.ebi.ac.uk/ena/data/view/PRJEB40733
Human Cardio Metabochip from AWIGEN study on the interplay between genetic, epigenetic and environmental risk factors for obesity and related cardiometabolic diseases (CMD) in sub-Saharan Africa
|Human Cardio Metabochip||973|
The samples were genotyped on the H3Africa array (~2.3M SNPs) using the Illumina FastTrack Sequencing Service2. The default Illumina pipeline was used for the genotype calling (build GRCh37/hg19). The data was converted to PLINK using the h3abionet/h3agwas/call2plink pipeline and QC done using the h3abionet/h3agwas/qc pipeline