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Table 1 Genes containing SNPs in promoters (Prom) and non-coding regions (NCR)

From: Cis-regulatory variations: A study of SNPs around genes showing cis-linkage in segregating mouse populations

Region

Number of Total Genes (CEGs+Non-CEGs)

Number of CEGs

Total Genes Containing SNPs

CEGs Containing SNPs

P-value (FET)

Ratio of Over-representation

NCR

4752

2047

3514

1769

6.03E-12

1.169

Prom 2 Kb

  

1569

863

2.48E-12

1.277

Prom 5 Kb

  

2260

1220

3.50E-12

1.253

Cons NCR

  

1476

782

4.20E-12

1.230

Cons Prom 2 Kb

  

236

122

2.60E-03

1.200

Cons Prom 5 Kb

  

388

196

8.79E-04

1.173

  1. CEG and non-CEG sets are defined in the text. Data for genes containing SNPs in non-coding region (NCR), 2 Kb upstream (Prom 2 Kb) and 5 Kb (Prom 5 Kb) upstream regions are given. Data on genes containing SNPs in conserved regions between mouse and human are indicated by 'Cons'. p-values less than 0.01 are in bold. All p-values are based on the Fisher exact test (FET). The ratio of over-representation (ROR) is defined as: ratio of the fraction of CEGs containing cis-SNPs to the fraction of all genes (CEGs+non-CEGs) containing cis-SNPs.