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Table 4 Haplotypes with frequency>0.01, LD group characterization and tSNP selected using data from Applied Biosystems*

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

a. NBS1

          

N1

 

N2

 

N3†

 

N4†

 

N5†

 

Frequency

1

 

1

 

1

 

1

 

1

 

0.55

2

 

2

 

2

 

2

 

2

 

0.26

1

 

2

 

2

 

2

 

2

 

0.10

1

 

2

 

2

 

1

 

2

 

0.03

2

 

2

 

1

 

1

 

2

 

0.03

1

 

2

 

1

 

1

 

2

 

0.03

LD Group and tSNP Designation

2‡

 

1‡

 

1

 

1

 

1

  

b. RAD50

          

R1†

R2

R3†

R4†

R5

R6†

R7

R8

R9

R10

Frequency

1

1

1

1

1

1

1

1

1

1

0.50

1

1

1

2

1

1

1

1

1

1

0.21

1

2

2

2

1

2

2

2

2

1

0.11

1

1

1

1

1

1

1

1

1

2

0.08

1

2

2

2

1

2

2

2

2

2

0.05

1

2

2

2

1

2

2

1

2

2

0.01

1

2

2

2

1

2

2

2

1

2

0.01

1

1

1

2

1

2

2

1

2

1

0.01

1

1

1

1

1

2

2

2

2

1

0.01

2

2

1

2

2

1

2

1

1

2

0.009§

LD Group and tSNP Designation

2‡

1

1‡

1

2

1

1

1

1

3‡

 
  1. *We used Applied Biosystems' validated SNP genotype data for 45 Caucasian subjects.
  2. † Allele designations have been changed from that listed by ABI to conform to the convention 1 = common allele, 2 = rare allele.
  3. ‡ tSNP selected / group
  4. § The haplotype with a frequency 0.009 was also analyzed to allow inclusion of rare variants at R1 and R5.
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BMC Cancer

ISSN: 1471-2407

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