. 2016 Jun 8;6:27644. doi: 10.1038/srep27644

Table 1. Advantages and disadvantages of existing methods to estimate regional genetic variance from summary association statistics.

Method	Advantages	Disadvantages
Multi-SNP locus association¹³	-Can estimate genetic variance of medium to large regions (i.e. small regions might not have SNPs remaining after LD and p-value pruning)	-Need for LD pruning as it assumes uncorrelated markers-Need for p-value pruning-Assumes population structure has been entirely adjusted for
LDScore¹¹	-Includes all SNPs irrespective of LD-Adjusts for potential bias such as population stratification-Can estimate genetic covariance between two traits	-Need for a reference LD structure-Best suited for genome-wide analysis or large regions
Distribution of effect size³,¹⁴,¹⁵ (AVENGEME and ABPA)	-Estimates the proportion of markers affecting a trait-Can estimate genetic covariance between two traits	-Need for LD pruning as it assumes uncorrelated markers-Assumes population structure has been entirely adjusted for-Best suited for genome-wide analysis or large regions
LD Adjusted Regional Genetic Variance (LARGV)	-Includes all SNPs irrespective of LD-Can estimate genetic variance of any region, small or large	-Need for a reference LD structure-Assumes population structure has been entirely adjusted for