EGAC00001000139

EGAC00001000139

DAC Accession Contact Person Email Access Information
EGAC00001000139 Etienne Patin epatin@pasteur.fr http://www.ebi.ac.uk/ega/dacs/EGAC00001000139

This DAC controls 9 datasets:

Dataset Accession Technology Samples Descriptionsort descending
EGAD00010001251 Illumina HumanMethylation450 38 Epigenome of 36 rainforest hunther-gathering Baka of Cameroon by Illumina HumanMethylation450 array, used in the EGAS00001002226 study
EGAD00010000692 372 Genome-wide DNA methylation epigenotyping of African rainforest hunter-gatherers and neighbouring agriculturalists by Illumina HumanMethylation450
EGAD00010001209 Illumina HumanOmniExpress-12 1235 Genome-wide SNP genotyping data for 1,235 western Africans by Illumina HumanOmniExpress-12 array, used in the EGAS00001002078 study
EGAD00010001452 Illumina HumanOmni2.5-8 102 Genome-wide SNP genotyping data for 102 Pakistani individuals by Illumina HumanOmni2.5-8 array, used in the EGAS00001002558 study
EGAD00010000496 Illumina HumanOmni1-Quad-Illumina GenomeStudio 260 Genome-wide SNP genotyping of African rainforest hunter-gatherers and neighbouring agriculturalists
EGAD00010000690 160 Genome-wide SNP genotyping of African rainforest hunter-gatherers and neighbouring agriculturalists by Illumina HumanOmniExpress
EGAD00010001489 Illumina HumanOmniExpress 816 Genotype data for 5,699,237 genotyped and imputed SNPs in the 816 healthy donors of the Milieu Intérieur cohort
EGAD00010001131 Illumina HumanOmni5-Quad and exome sequencing 200 The 100 European-descent (EUB) and 100 African-descent (AFB) Belgians studied were genotyped for a total of 4,301,332 SNPs on the Illumina HumanOmni5-Quad BeadChips. Whole-exome sequencing was carried out for the same 200 individuals with the Nextera Rapid Capture Expanded Exome kit, on the Illumina HiSeq 2000 platform, with 100-bp paired-end reads. This kit delivers 62 Mb of genomic content per individual, including exons, untranslated regions (UTR), and microRNAs. Omni5 and exome datasets were merged, yielding a concordance rate between platforms of 99.93%.
EGAD00001002714 Illumina HiSeq 2000;ILLUMINA 970 We recruited 100 healthy, male donors of self-reported European descent (EUB) and 100 of self-reported African descent (AFB) (Ghent, Belgium). For each participant, peripheral blood mononuclear cells (PBMCs) were isolated from whole blood on Ficoll-Paque density gradients. Monocytes were then positively selected with magnetic CD14 microbeads and exposed for 6 hours to different ligands activating TLR4 (LPS), TLR1/2 (Pam3CSK4), TLR7/8 (R848) and to a human seasonal influenza A virus (IAV). High-quality RNA was obtained from unstimulated and stimulated monocytes for 970 of the 1000 samples (200 x 5 conditions), and was sequenced on an Illumina HiSeq2000. On average, 34 million 101-bp single-end reads were obtained per sample.

DAC description