At one point in time, I had the answer committed to memory, but now that I’ve moved out of the world of genetic epi, I had to spend some time researching this question today:
What are the ethnic breakdowns of the 1000 Genomes Phase 1 and Phase 3 populations?
From this rather hard to find file on the 1000GP FTP site, we have the following for phase 1:
ASW AFR 61 LWK AFR 97 YRI AFR 88 CLM AMR 60 MXL AMR 66 PUR AMR 55 CHB EAS 97 CHS EAS 100 JPT EAS 89 CEU EUR 85 FIN EUR 93 GBR EUR 89 IBS EUR 14 TSI EUR 98
yielding the following phase 1 “super population” totals:
AFR 246 AMR 181 EAS 286 EUR 379
For phase 3, it’s a bit trickier. There were originally 2,535 samples sequenced, but 31 were removed due to unexpected relatedness, leaving us with 2504 samples found in the Phase 3 release VCF files. I had to download a phase 3 VCF file, look at the header to get the list of 2504 individuals, then compare against the 1000 Genomes “sample info” spreadsheet to derive the required information.
Here’s the breakdown of the 2504 samples included in phase 3:
ACB AFR 96 ASW AFR 61 ESN AFR 99 GWD AFR 113 LWK AFR 99 MSL AFR 85 YRI AFR 108 CLM AMR 94 MXL AMR 64 PEL AMR 85 PUR AMR 104 CDX EAS 93 CHB EAS 103 CHS EAS 105 JPT EAS 104 KHV EAS 99 CEU EUR 99 FIN EUR 99 GBR EUR 91 IBS EUR 107 TSI EUR 107 BEB SAS 86 GIH SAS 103 ITU SAS 102 PJL SAS 96 STU SAS 102
with the phase 3 super populations as follows:
AFR 661 AMR 347 EAS 504 EUR 503 SAS 489
By the way, here’s a legend of those rather vague ethnicity IDs:
CDX Chinese Dai in Xishuangbanna, China CHB Han Chinese in Bejing, China JPT Japanese in Tokyo, Japan KHV Kinh in Ho Chi Minh City, Vietnam CHS Southern Han Chinese, China BEB Bengali in Bangladesh GIH Gujarati Indian in Houston,TX ITU Indian Telugu in the UK PJL Punjabi in Lahore,Pakistan STU Sri Lankan Tamil in the UK ASW African Ancestry in Southwest US ACB African Caribbean in Barbados ESN Esan in Nigeria GWD Gambian in Western Division, The Gambia LWK Luhya in Webuye, Kenya MSL Mende in Sierra Leone YRI Yoruba in Ibadan, Nigeria GBR British in England and Scotland FIN Finnish in Finland IBS Iberian populations in Spain TSI Toscani in Italy CEU Utah residents with Northern and Western European ancestry CLM Colombian in Medellin, Colombia MXL Mexican Ancestry in Los Angeles, California PEL Peruvian in Lima, Peru PUR Puerto Rican in Puerto Rico