Where to find public human WGS fastq not from 1KGP?

Question

[Zeng Jingyu]

Recently I'm doing a test on 1KGP reference panel, so I need human WGS data(fastq, bam with hg38) which not from 1KGP to do the imputation test. Where can I find about 100~1,000 human WGS samples except 1KGP?

[ATpoint]

TOPMed sequenced about 50000 genomes, https://www.nature.com/articles/s41586-021-03205-y, probably the linked paper contains info on data accessability, which is most likely access-restricted, so you will have to apply.

Answer 1

[4galaxy77]

HGDP and SGDP all contain sequencing data.

They all have slightly different numbers of people from different populations (1000 genomes and HGDP have more individuals in each pop, but fewer pops, and SGDP is the opposite).