Genes Associated with SLE Are Targets of Recent Positive Selection

Table 3

Regions with evidence for selection in the HGDP populations.

Gene region	Chr	Mb	𝐹ST	iHS		XP-EHH
			Max −log(𝑃)	Max −log(𝑃)	Pop	Max −log(𝑃)	Pop
PTPN22	1	114.158	2.5	3	Afr	3.5	Afr
TNFSF4	1	171.419	4.5	2.5	EAsia	3.5	EAsia
CRP	1	199.719	3.5	—	—	2.5	Afr, Eur
IL10	1	205.008	4	2	MEast, EAsia	2.5	SAsia EAsia
TET3, DGUOK	2	74.212	2.5	2	SAsia	3.5	MEast, SAsia
TNIP1	5	150.390	3.5	1.5	MEast	3	Amer
PTTG1	5	159.781	—	3.5	Afr	2.8	MEast, Afr
UHRF1BP1	6	34.868	—	3	Amer	3.5	Amer
IKZF1	7	50.315	3.5	3	EAsia	2.5	EAsia
BLK	8	11.389	4	3	SAsia, MEast, Afr	4	EAsia
ARMC3	10	23.257	2.5	2.5	MEast	3.5	MEast
SLC15A4	12	127.844	3.5	—	—	2.5	Afr, Eur
CLEC16A	16	11.038	2	4	Amer	4	Amer
ITGAM	16	31.179	2.5	2	EAsia	3.5	EAsia
IRF8	16	84.490	2.5	2	SAsia	4	SAsia
SCUBE1	22	41.929	2.5	2	Oceania	3	Oceania

Regions were considered to show evidence for selection if the maximum −log₁₀(𝑃)>3 for either the 𝐹_ST, iHS, or XP-EHH. The table shows the highest −log₁₀(empirical 𝑃 value) and respective population for the 𝐹_ST, iHS, and XP-EHH in each region. Regions whose −log₁₀(𝑃)<2 are marked with (—). See Methods for details. Chr: chromosome, Mb: mega basepairs, Max: maximum, Pop: population. Populations: Bantu-speaking Africans (Afr), Europeans (Eur), Middle Easterners (MEast), Eastern Asians (EAsia), South Asians (SAsia), Americans (Amer), and Oceanians (Oceania).