Table 3.

Diversity and Neutrality Test Scores Based on 1000 Genomes Data for LD Block of SYNPO Variant rs6579797

1000 Genomes Populationsa	N	S	π	Tajima’s D	Fu and Li’s F	Fu and Li’s D	Fay and Wu’s H	Zeng’s E
African	246	211	34.36	−0.04	0.07	0.18	0.73	−0.66
Admixed American	181	156	10.91	−1.89**	−2.83**	−2.83**	0.43c	−2.06**
East Asian	286	107	26.59	1.66	1.53	0.90	−4.44	5.14b
European	379	116	7.36	−1.75**	−3.02**	−3.37**	0.44c	−1.90**
Total	1092	298	23.04	−1.19	−2.15**	−2.81**	0.69	−1.59*

^{Note: Diversity measurements (segregating sites [S], nucleotide diversity [π]), and neutrality test statistics, as determined by differences in unbiased estimators of θ = 4 Neμ, were computed for variants found within an observed LD block for rs6579797 in the gene SYNPO (pairwise r2 > .90, carrying ancestral minor alleles), corresponding to hg19 coordinates chr5: 149 992 784–150 013 606 (delineated by SNPs rs10074935 and rs61051686).}

^a1000 Genomes phase 1 version 3 data for 4 “super populations”: African (AFR), representing Yoruba in Nigeria (YRI), Luhya in Kenya (LWK), and Americans of African ancestry from southwestern United States (ASW); Admixed American (AMR), representing Colombians from Medellin, Colombia (CLM), Puerto Ricans (PUR), and Americans of Mexican ancestry from Los Angeles (MXL); East Asian (ASN), representing Han Chinese from Beijing (CHB), Southern Han Chinese (CHS), and Japanese from Tokyo (JPT); and European (EUR), representing Utah residents with Northern and Western European ancestry (CEU), Toscani in Italy (TSI), British in England and Scotland (GBR), Iberian population in Spain (IBS), and Finnish in Finland (FIN).

^bFor the other tail of the distribution (ie, positive), this score is significant, with an empirical P value of .034.

^cPositive deviation Fay and Wu’s H, a statistic that utilizes information from the intermediate- and high-frequency parts of the frequency spectrum, coupled with the negative score for Zeng’s E based on low- and high-frequency variant classes, suggests that the locus may be entering a recovery phase for these 2 populations.

^*Empirical P value (1-tailed) <0.05, ^** <0.01, based on an observed distribution for 1000 samples generated via coalescent simulation.