Fine-scale detection of population-specific linkage disequilibrium using haplotype entropy in the human genome

BMC Genomic Data

Table 1 Comparison with previously reported signatures

					Overlap to haplotype entropy method
Method	Scan resolution	Dataset	Population	Gene #	Expected	Observed	χ²p -value	Ref.
Entropy	23 kb	HapMap2	Caucasian	150	-	-	-
CLR	~500 kb	Perlegen	Caucasian	41	0.2896	5	3.8e-15	[16]
iHS	100 kb	HapMap2	Caucasian	246	1.7374	13	< 2.2e-16	[5]
iHS	200 kb	HGPD	Caucasian	194	1.3701	12	< 2.2e-16	[12]
XP-EHH	~800 kb-3.5 Mb	HapMap2	Caucasian	23	0.1624	8	< 2.2e-16	[6]
XP-EHH	~500 kb	HGPD	Caucasian	177	1.2501	22	< 2.2e-16	[12]
Entropy	23 kb	HapMap2	African	170	-	-	-
CLR	~500 kb	Perlegen	African	10	0.0800	2	4.6e-07	[16]
iHS	200 kb	HGPD	African (Bantu)	245	1.9610	14	< 2.2e-16	[12]
iHS	200 kb	HGPD	African (Biaka)	165	1.3207	4	0.05595	[12]
iHS	100 kb	HapMap2	African	262	2.0971	15	< 2.2e-16	[5]
XP-EHH	200 kb	HGPD	African (Bantu)	400	3.2017	27	< 2.2e-16	[12]
XP-EHH	200 kb	HGPD	African (Biaka)	425	3.4018	7	0.08843	[12]
XP-EHH	~800 kb-3.5 Mb	HapMap2	African	ND	-	-	-	[6]

ISSN: 2730-6844