Table 1

Regional spousal identity.

Similarity only

SNPs

Fisher meta

Background

P value

Value

Mean Fisher

Value


HLA region

458

7.7 * 10-10

0.15

0.013

HLA class I region

280

1.0 * 10-8

0.043

0.029

HLA class II region

90

0.82

0.35

0.83

HLA class III region

88

6.4 * 10-6

0.36

0.09

OR13 region chr. 9

25

3.8 * 10-43

0.48

8.8 * 10-5


Dissimilarity only

SNPs

Fisher meta

Background

P value

Value

Mean Fisher

Value


HLA region

246

0.11

0.61

0.20

HLA class I region

140

0.43

0.56

0.39

HLA class II region

63

0.063

0.59

0.12

HLA class III region

43

0.24

0.60

0.27

OR13 region chr. 9

60

0.24

0.41

0.48


Combined

SNPs

Fisher meta

Background

P value

Similarity and Dissimilarity

Value

Mean Fisher

Value


HLA region

704

7.5 * 10-9

0.51

0.0025

HLA class I region

420

7.3 * 10-7

0.033

0.23

HLA class II region

153

0.38

0.49

0.44

HLA class III region

131

2.6 * 10-5

0.53

0.047

OR13 region chr. 9

85

7.7 * 10-29

0.52

0.00056


Position

Recombination rate cM/Mb

Start

End


HLA region

1.57

29,700,000

33,300,000

HLA class I region

1.38

29,700,000

31,500,000

HLA class II region

2.43

32,500,000

33,300,000

HLA class III region

1.12

31,500,000

32,500,000

OR13 region chr. 9

0.69

104,000,000

104,500,000


The MHC region as a whole shows similarity between couples. When broken down into classes, class I shows significant similarity between couples. Of the three MHC classes, class II shows the most dissimilarity between couples, albeit not statistically significant. HLA-B and HLA-DRA denote the boundaries between the three MHC classes. UCSC Build 35 coordinates are shown.

Khankhanian et al. BMC Genomics 2010 11:626   doi:10.1186/1471-2164-11-626

Open Data