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Table 2 Haplotypes with frequency>0.01, LD group characterization and tSNPs selected using Utah genotyping data*

From: Characterization of the linkage disequilibrium structure and identification of tagging-SNPs in five DNA repair genes

a. ATM

                     

A1

A2

A3

A4

A5

A6

A7

A8

A9

A10

A11

A12

A13

A14

Freq

       

1

1

1

1

1

1

1

1

1

1

1

1

1

1

0.54

       

2

2

2

2

2

2

2

2

2

2

2

2

2

2

0.42

       

2

2

2

2

2

2

1

2

2

2

2

2

2

2

0.01

       

2

2

2

1

2

2

1

2

2

2

1

2

2

2

0.01

       

1

1

1

1

1

1

1

1

1

1

2

1

1

1

0.01

       

LD Group and tSNP Designation

1

1

1

1

1

1

1

1

1

1

1

1

1†

1

        

b. MRE11A

                     

M1

M2

M3

M4

M5

M6

M7

M8

M9

M10

M11

Freq

          

2

2

2

1

2

2

1

1

1

1

1

0.30

          

1

1

1

2

1

1

1

2

1

1

1

0.28

          

1

1

1

1

1

1

1

1

1

1

1

0.25

          

1

1

1

2

1

1

1

1

1

1

2

0.09

          

1

1

1

1

1

1

1

2

1

1

1

0.06

          

1

1

1

2

1

1

2

1

2

2

1

0.01

          

LD Group and tSNP Designation

1

1

1

4†

1

1†

2

4

2

2†

3†

           

c. XRCC4

                     

X1

X2

X3

X4

X5

X6

X7

X8

X9

X10

X11

X12

X13

X14

X15

X16

X17

X18

X19

X20

X21

Freq

2

2

2

2

2

2

2

2

1

2

2

2

2

1

1

1

1

1

1

1

1

0.35

1

1

1

1

1

1

1

1

2

1

1

1

1

1

2

1

1

1

1

1

1

0.19

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

0.11

1

1

1

1

1

1

1

1

1

1

1

1

1

2

1

2

2

2

1

1

1

0.10

1

2

2

2

2

2

2

2

1

2

2

2

2

1

1

1

1

1

1

1

1

0.05

1

1

1

1

1

1

1

1

2

1

1

1

1

1

2

1

1

1

2

2

2

0.03

1

1

1

1

1

1

1

1

1

1

1

1

1

2

1

2

1

1

1

1

1

0.02

2

2

2

2

2

2

2

2

1

2

2

2

2

1

1

1

1

1

2

2

2

0.02

2

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

0.02

2

2

2

1

2

2

2

2

1

2

2

2

2

2

1

2

2

2

1

1

1

0.02

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

2

2

2

0.02

1

1

1

1

1

1

1

1

1

1

1

1

1

2

1

1

2

2

1

1

1

0.01

 

1

1

1

1

1

1

2

1

1

1

1

1

2

1

1

2

2

1

1

1

0.01

LD Group and tSNP Designation

1

1†

1

1

1

1

1

1

4†

1

1

1

1

2†

4

2

2

2

3

3

3†

 
  1. * Analysis considers the total panel of 94 individuals together
  2. † tSNP selected / group