| EGAD00001004220 |
41 samples from Zambia generated for the H3Africa Chip Design Study. The dataset includes BAM, FASTQ and decompressed gVCF files. |
Illumina HiSeq 2500 |
41 |
| EGAD00001004316 |
24 samples from Cameroon generated for the H3Africa Chip Design Study. The dataset includes BAM, FASTQ and decompressed gVCF files. |
Illumina HiSeq 2500 |
24 |
| EGAD00001004334 |
50 samples from Mali generated for the H3Africa Chip Design Study. The dataset includes BAM, FASTQ and decompressed gVCF files. |
Illumina HiSeq 2500 |
50 |
| EGAD00001004393 |
26 samples from Cameroon generated for the H3Africa Chip Design Study. The dataset includes BAM, FASTQ and decompressed gVCF files. |
Illumina HiSeq 2500 |
26 |
| EGAD00001004448 |
60 samples from Burkina Faso and Ghana generated for the H3Africa Chip Design Study. The dataset includes BAM, FASTQ and decompressed gVCF files. |
Illumina HiSeq 2500 |
60 |
| EGAD00001004505 |
49 samples from Nigeria generated for the H3Africa Chip Design Study. The dataset includes BAM, FASTQ and decompressed gVCF files. |
Illumina HiSeq 2500 |
49 |
| EGAD00001004533 |
48 samples from Botswana generated for the H3Africa Chip Design Study. The dataset includes BAM, FASTQ and decompressed gVCF files. |
Illumina HiSeq 2500 |
48 |
| EGAD00001004557 |
. The dataset includes BAM, FASTQ and decompressed gVCF files. 50 samples from Benin generated for the H3Africa Chip Design Study |
Illumina HiSeq 2500 |
50 |
| EGAD00001005076 |
This dataset is for TrypanoGEN Phase 1: Variant discovery, and includes 233 samples sequenced to approximately 10X coverage. Samples are from Guinea, Cote D’Ivoire, DRC and Uganda. |
|
1 |
| EGAD00001005310 |
The phenotypic data for 348 samples of the H3Africa Chip Design Study. Divided into 8 datasets of 41 samples from Zambia, 24 samples from Cameroon, 50 samples from Mali, 26 samples from Cameroon, 49 samples from Nigeria, 48 samples from Botswana, 50 samples from Benin, 60 samples from Burkina Faso and Ghana. |
Illumina HiSeq X Ten |
348 |
| EGAD00001006224 |
Whole Exome Sequencing data from a retrospective paediatric HIV-disease progression cohort defined on the World Health Organization's criteria for paediatric HIV progression. Data comprises of BAM and VCF files for 314 participants from 2 countries: Botswana and Uganda. |
Illumina HiSeq 2500 |
314 |
| EGAD00001006244 |
Shotgun metagenomic sequencing data for nasopharyngeal colonization dynamics with Streptococcus pneumoniae and associated antimicrobial-resistance in a South African birth cohort.
https://www.ebi.ac.uk/ena/data/view/PRJEB37312 |
|
196 |
| EGAD00001006295 |
SNPS and INDELS of novel hereditary neurological disease genes in Mali. |
|
10 |
| EGAD00001006418 |
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. |
|
100 |
| EGAD00001006425 |
The phenotypic data for ~12500 samples of the 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 including Ghana, Burkina Faso, Kenya and South Africa. Some groups are missing data for specific variables. Data includes questionnaire data (demography, health history, family health history, behaviour and infection data); anthropometry; and laboratory assays on blood and urine. |
|
12032 |
| EGAD00001006581 |
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 |
|
171 |
| EGAD00001008577 |
Joint called VCF for whole genome sequence data from 410 samples described in the paper: PMID:33116287. It includes 314 high coverage (average 30X) samples sequenced on the Illumina X-Ten, also available as individual datasets under the H3Africa Chip study (EGAS00001002976) and 112 medium coverage (average 10X) samples from the TrypanGen study (EGAS00001002602) sequenced on Illumina HiSeq 2500. Supplementary table 3 of the paper describes the geographic breakdown of the samples. 16 samples from the Southern African Human Genome project have been removed from this VCF. |
Illumina X-Ten |
410 |
| EGAD00010001258 |
Pilot study on the interplay between genetic, epigenetic, and environmental risk factors for obesity and related cardiometabolic diseases with 973 samples from South Africa genotyped on Illumina Human MetaboChip array. |
Human Cardio Metabochip |
973 |
| EGAD00010001996 |
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 |
|
10776 |
