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Table 1 Names of genes for which sequence variations in CPRs were identified as outliers by Tajima’s D test and gene expression variation could be explained by sequence variation in CPRs

From: Natural selection in a population of Drosophila melanogaster explained by changes in gene expression caused by sequence variation in core promoter regions

Gene name

FDR

Ï€

Tajima’s D

# TFBSs

Linkage with neighbor

CG33506

1.84E-03

0.0262

2.776

3

N

CG10463

9.300E-08

0.0179

2.603

2

N

CG6950

8.286E-03

0.0123

2.578

7

N

Nmda1

2.969E-04

0.00649

2.335

1

Y

CG14253

2.602E-02

0.0124

2.326

1

N

Cyp4d1

1.240E-09

0.0151

2.175

1

Y

brat

1.541E-02

0.00583

2.171

1

N

CG9044

9.963E-03

0.0171

2.094

1

N

CG15743

4.214E-02

0.00607

2.074

2

N

CG17660

1.586E-04

0.00255

−1.958

4

N

CG11590

2.735E-02

0.00648

−2.081

1

N

MBD-R2

1.061E-02

0.00387

−2.098

2

N

CHKov1

2.437E-09

0.00249

−2.106

3

Y

  1. Genes in which sequence variations in CPRs did not change TFBSs and different TFBSs did not affect differences in expression levels were excluded
  2. FDR false discovery rates for the linear model used to detect the relationship between gene expression and sequence variations
  3. # TFBSs = the number of TFBSs estimated by PSSM scores, which differed among the alleles of CPRs found in the population
  4. Linkage with neighbor: linkage with one or more SNPs in noncoding regions flanking CPR could explain differences in expression level
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BMC Ecology and Evolution

ISSN: 2730-7182

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