Table 1 Initial set of unique μ-SNPs (n = 36) significantly associated with asthma risk in GERA cohort, sorted by permutation P-value

From: Enhancer RNA transcription pinpoints functional genetic variants linked to asthma

SNP rsIDa

Minor Allele Frequency (GERA)

Odds Ratio for Asthma Risk (95% CI)b

Differentially Regulated Enhancer Dataset Assoc. with μ-SNPc

Permutation P valued

rs117861858

4.92 × 10−05

10.4 (1.60 −67.7)

dex-repressed

1.13 × 10−04

rs141870749

2.95 × 10−05

9.83 (0.55 −176)

dex-induced

1.58 × 10−04

rs150872583

2.95 × 10−05

6.95 (0.63 − 77.1)

dex-induced

1.59 × 10−04

rs3129975

2.14 × 10−01

1.08 (1.04 − 1.12)

dex-repressed

1.65 × 10−04

rs113433891

1.97 × 10−05

5.07 (0.31 − 82.2)

dex-induced

2.34 × 10−04

rs80028982

9.83 × 10−06

3.09 (0.19 − 50.2)

dex-induced

2.35 × 10−04

rs149411423

2.95 × 10−05

13.2 (0.48 − 364)

dex-induced

2.36 × 10−04

rs187844646

1.97 × 10−05

12.6 (0.60 − 265)

dex-induced

2.36 × 10−04

rs141937580

1.97 × 10−05

5.30 (0.11 − 253)

dex-induced

2.40 × 10−04

rs182978446

1.97 × 10−05

10.8 (0.55 − 210)

dex-induced

2.41 × 10-04

rs186639917

1.57 × 10−04

5.43 (1.57 − 18.8)

dex-induced

1.61 × 10-03

rs78553489

2.07 × 10−04

4.12 (1.36 − 12.5)

TNF-repressed

4.71 × 10-03

   

dex-induced

6.21 × 10-03

rs258760

3.40 × 10−01

0.95 (0.92 − 0.99)

dex-repressed

5.04 × 10-03

rs189641630

6.59 × 10−04

2.16 (1.23 − 3.79)

dex-induced

6.00 × 10-03

rs141243502

2.56 × 10−04

0.15 (0.031 − 0.71)

dex-induced

6.50 × 10-03

rs12506479

2.71 × 10−01

1.05 (1.01 − 1.09)

TNF-induced

6.58 × 10-03

rs114363579

3.34 × 10−04

2.47 (1.18 − 5.13)

dex-repressed

9.30 × 10−03

rs61289882

2.08 × 10−01

1.05 (1.01 − 1.09)

TNF-induced

9.38 × 10−03

rs73731205

1.42 × 10−03

0.55 (0.34 − 0.88)

dex-repressed

1.02 × 10−02

rs76528672

7.87 × 10−05

5.51 (1.33 − 22.9)

dex-repressed

1.06 × 10−02

rs76717004

3.09 × 10−03

0.67 (0.49 − 0.913)

dex-repressed

1.15 × 10−02

rs58128597

7.54 × 10−02

0.93 (0.87 − 0.98)

TNF-repressed

1.33 × 10−02

rs78292063

1.60 × 10−03

1.55 (1.08 − 2.22)

dex-induced

1.41 × 10−02

rs57722273

2.38 × 10−03

1.43 (1.05 − 1.94)

dex-induced

2.13 × 10−02

rs186724791

1.57 × 10−04

0.08 (0.01 − 0.84)

dex-induced

2.24 × 10−02

   

TNF-induced

2.24 × 10−02

rs1454917

3.40 × 10−01

1.04 (1.00 − 1.07)

dex-repressed

2.83 × 10−02

rs186542091

8.92 × 10−03

0.82 (0.69 − 0.98)

dex-repressed

3.29 × 10−02

rs1409773

6.30 × 10−02

1.07 (1.00 − 1.14)

TNF-induced

3.64 × 10−02

rs3094117

2.72 × 10−01

1.04 (1.00 − 1.07)

dex-repressed

3.69 × 10−02

rs3924229

8.19 × 10−02

0.94 (0.89 − 1.00)

dex-induced

3.92 × 10−02

rs78124271

1.48 × 10−03

1.50 (1.01 − 2.23)

dex-induced

4.03 × 10−02

rs188187807

1.77 × 10−04

2.73 (0.97 − 7.66)

dex-induced

4.20 × 10−02

rs150808839

1.17 × 10−02

0.86 (0.74 − 0.99)

dex-induced

4.29 × 10−02

   

TNF-induced

4.48 × 10−02

rs60249091

1.82 × 10−01

1.04 (1.00 − 1.08)

TNF-induced

4.33 × 10−02

rs6018492

8.64 × 10−02

0.95 (0.89 − 1.00)

dex-induced

4.78 × 10−02

rs184589179

2.72 × 10−03

0.72 (0.53 − 1.00)

dex-induced

4.98 × 10−02

  1. aReference SNP cluster identifier.
  2. bOdds ratios with 95% confidence intervals obtained from logistic regression testing for association with asthma risk (described in Statistical Methods).
  3. cDatasests (described in Cell Culture and Methods) corresponding to cell lines stimulated with either dexamethasone or TNF.
  4. dP values were obtained using Max(T) permutation (as described in Statistical Methods and reference 30); this column includes one-sided P values following multiple test correction by FDR.
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