Skip to main content
. 2023 Oct 27;110(11):1888–1902. doi: 10.1016/j.ajhg.2023.09.013

Table 1.

The number of unrelated individuals in UK Biobank analysis

A. Population assignment
WB NBW SA Afr Others Total
Training set 237,055 10,130 5,206 4,246 28,024 284,661
Validation set 33,865 1,448 744 607 4,003 40,667
Held-out test set 67,730 2,894 1,487 1,213 8,007 81,331
Total 338,650 14,472 7,437 6,066 40,034 406,659
B. The number of unrelated individuals used in polygenic score training
Model WB NBW SA Afr Others Total
graphic file with name fx2.gif i. WB-only 237,055 0 0 0 0 237,055
graphic file with name fx3.gif ii. Inclusive 237,055 10,130 5,206 4,246 28,024 284,661
graphic file with name fx4.gif iii. Inclusive-FixN 189,449 10,130 5,206 4,246 28,024 237,055
graphic file with name fx5.gif iv. iMultiPop, NoAdmixed 217,473 10,130 5,206 4,246 0 237,055
graphic file with name fx6.gif v. iPGS+refit in Afr (wo/ interaction) 237,055 10,130 5,206 4,246 28,024 284,661
graphic file with name fx7.gif vi. iPGS+refit in Afr 237,055 10,130 5,206 4,246 28,024 284,661
graphic file with name fx8.gif vii. PRS-CSx 270,920 11,578 5,950 4,853 0 293,301
graphic file with name fx9.gif viii. PRS-CSx (n = 256k) 237,055 10,130 5,206 4,246 0 256,637

(A) The number of training, validation, and test-set individuals across population groups is shown. (B) The number of individuals used to train PGS models is shown. In the iPGS+refit in Afr models (models v and vi), ntrain = 284,661 individuals were used to train the iPGS model, whereas a subset of n = 4,853 individuals were used in the population-specific refit model (material and methods). Abbreviations are as follows: WB, White British; NBW: non-British White; SA, South Asian; and Afr, African.