DAC

Aboriginal Australia Genome Consortium

Dac ID Contact Person Email Access Information
EGAC00001000465 Eske Willerlsev ewillerslev [at] snm [dot] ku [dot] dk No additional information is available

This DAC controls 5 datasets:

Dataset ID Description Technology Samples
EGAD00001002001 Mapped data (bam files) for high-throughput whole genome sequence data for 83 modern Aboriginal Australians 83
EGAD00001004155 Genotype calls for 83 Aboriginal Australian genomes split by chromosomes. In short, genotypes were called individually with samtools. They were subsequently filtered with thresholds related to sequencing depth, location of variants, sequencing error, and strand bias. Once combined, the genotypes were filtered when not in Hardy-Weinberg equilibrium. The genomes were phased with IMPUTE using the 1000 Genomes reference panel. NB: for the Y chromosomes​, only the 44 Aboriginal Australian males are included. 83
EGAD00010001573 Variations on the Y chromosome from 44 samples 44
EGAD00010001574 Alignement including 83 MT AA sequences and 2 reference sequences, rCRS and RSRS 83
EGAD00010001575 This dataset contains the per-chromosome RFMix input and output files for the local ancestry inference of 59 Aboriginal Australian genomes as reported in Malaspinas et al., 2016. Local ancestry was inferred assuming four mixing ancestral populations represented by: Europeans (27 individuals), Asians (29 individuals), Papuans (13 individuals) and Native Australians (7 individuals from the WCD region). 66