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Table 1 List of SNPs tested for LD with the BTNL8*3 deletion CNV

From: A common 56-kilobase deletion in a primate-specific segmental duplication creates a novel butyrophilin-like protein

   

ASW

 

CEU

 

CHB

 

CHD

 

GHI

 

JPT

 

LWK

 

MKK

 

MEX

 

TSI

 

YRI

 

rs Number

Position

Distance to deletion breakpoints

D'

r2

D'

r2

D'

r2

D'

r2

D'

r2

D'

r2

D'

r2

D'

r2

D'

r2

D'

r2

D'

r2

rs1904435

180322735

52,292

    

0.94

0.834

1

0.77

0.81

0.596

1

0.829

0.31

0.03

  

0.93

0.537

0.8

0.495

0.69

0.099

rs7735361

180329359

45,668

1

0.086

0.91

0.843

1

0.658

1

0.706

0.94

0.663

1

0.796

0.3

0.034

0.37

0

0.82

0.58

0.8

0.54

0.03

0

rs17704291

180336849

38,178

0.8

0.43

1

0.96

0.94

0.889

-

-

-

-

1

1

0.28

0.04

  

0.94

0.76

0.9

0.68

0.3

0.06

rs4700772

180341845

33,182

0.8

0.539

1

1

1

1

1

0.966

1

0.946

1

1

0.8

0.25

0.63

0.322

1

0.952

1

0.752

0.8

0.3

rs2387715

180361266

13,761

0.8

0.694

1

1

1

1

1

0.966

1

0.944

1

1

0.8

0.237

0.63

0.322

1

0.952

1

0.749

0.8

0.33

rs3733755

180374484

543

1

0.686

1

0.815

1

0.692

1

0.451

1

0.588

1

0.486

1

0.31

0.77

0.195

1

0.86

1

0.598

1

0.38

deletion

180375027-180430596

                       

rs10063135

180432024

1,428

1

0.177

1

0.923

1

0.946

1

0.966

1

0.545

1

0.754

0.4

0.161

0.8

0.101

1

0.82

0.97

0.81

0.8

0.09

rs4700774

180434216

3,620

1

0.473

1

1

1

0.945

1

0.966

1

0.893

1

1

0.84

0.12

0.5

0.09

0.95

0.903

1

0.752

0.2

0.07

rs7721042

180439488

8,892

  

1

0.958

1

0.939

-

-

-

-

1

1

-

-

    

-

-

0.03

0

rs11249756

180455372

24,776

1

0.473

1

0.923

1

0.945

0.96

0.86

0.8

0.64

1

1

0.4

0.161

0.44

0.07

0.94

0.807

0.94

0.72

0.2

0.07

rs4701016

180458539

27,943

1

0.686

0.91

0.733

1

0.646

0.86

0.37

0.6

0.3

1

0.486

1

0.364

0.2

0.01

0.85

0.719

0.9

0.55

1

0.3

rs6868418

180458813

28,217

1

0.686

0.91

0.733

1

0.646

0.86

0.4

0.6

0.3

1

0.486

1

0.364

-

-

-

-

-

-

1

0.3

  1. HapMap phase III populations were screened for tagging SNPs for the BTNL8_BTNL3-del allele. Several SNPs could be identified in Eastern Asian (CHB, CHD and JPT), American (GIH and MEX) and CEU population. However, no LD could be observed in African population (ASW, LKW, MKK and YRI) and only a weak association for rs10063135 could be detected in TSI population.
  2. r2 higher than0.8 indicates a significant correlation. ASW, individuals with African ancestry from Southwest USA; CEU, individuals from Utah with northern and western European ancestry; CHB, Han Chinese from Bejing; CHD, Han Chinese from Denver, Colorado; GIH, Gujarati Indians from Houston, Texas; JPT, Japanese from Tokyo; LWK, Luhya from Webuya, Kenya; MEK, individuals with Mexican ancestry from Los Angeles, California; MKK, Maasai from Kinyawa, Kenya; TSI, Toscans from Italy; YRI, Yorubas from Ibadan, Nigeria.