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Table 3 Hardy Weinberg equilibrium and LD variance for the three EAAT2 SNPs using pyrosequencing or SSCP

From: Detection of three closely located single nucleotide polymorphisms in the EAAT2 promoter: comparison of single-strand conformational polymorphism (SSCP), pyrosequencing and Sanger sequencing

 

Pyrosequencing

SSCP

 

Hardy-Weinberg

for -168

p > 0.99

N/A

for -181

p = 0.0188

p = 0.4063

for -200

p = 0.0256

p = 0.3325

 

Lewontin’s D’

-168 and -181

0.49

N/A

-168 and -200

1

N/A

-181 and -200

0.94

1

 

r 2

-168 and -181

0

N/A

-168 and -200

0

N/A

-181 and -200

0.79

0.99

  1. Lewontin’s D’ and r2 both give ordinal measures of Linkage Disequilibrium (LD). Please note only one mutation was found at -168 making interpretation difficult for these associations.
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BMC Genomic Data

ISSN: 2730-6844

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