We note that the simulations in [19] show that single-trait LD Score regression is only minimally biased by uncorrected population stratification and moderate ancestry mismatch between the reference panel used for estimating LD Scores and the population sampled in GWAS. In particular, LD Scores estimated from the 1000 Genomes reference panel are suitable for use with European-ancestry meta-analyses. Put another way, LD Score is only minimally correlated with FST, and the differences in LD Score among European populations are not so large as to bias LD Score regression. Since we use the same LD Scores for cross-trait LD Score regression as for single-trait LD Score regression, these results extend to cross-trait LD Score regression.
