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Table 1 Univariate transcript heritability and linkage analysis compared to principal-component approach: chromosome 4q28.2-31.1 region

From: Comparison of strategies for identification of regulatory quantitative trait loci of transcript expression traits

Transcript

Groupa

Gene name

Gene symbol

H2 (SE)b

H2 p-value

LOD score

Trait locus location

Transcript gene locus

218935_at

 

EH-domain containing 3

EHD3

0.20 (0.13)

0.01

1.98

4q28.2

2p21

212652_s_at

1

sorting nexin 4

SNX4

0.21 (0.09)

0.001

3.03

4q28.2

3q21.2

212426_s_at

1

tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide

YWHAQ

0.40 (0.15)

<0.001

2.12

4q28.2

2p25.1

207076_s_at

1

argininosuccinate synthetase

ASS

0.19 (0.11)

0.01

1.17

4q28.2

9q34.1

213798_s_at

2

CAP, adenylate cyclase-associated protein 1 (yeast)

CAP1

0.16 (0.09)

0.008

1.73

4q28.2

1p34.2

220143_at

 

LUC7-like (S. cerevisiae)

LUC7L

0.16 (0.09)

0.013

1.79

4q28.3

16p13.3

204994_at

1

myxovirus (influenza virus) resistance 2 (mouse)

MX2

0.30 (0.13)

<0.001

3.72

4q28.3

21q22.3

200974_at

 

actin, alpha 2, smooth muscle, aorta

ACTA2

0.20 (0.09)

0.003

1.61

4q28.3-q31.1

10q23.3

201397_at

2

phosphoglycerate dehydrogenase

PHGDH

0.32 (0.12)

<0.001

2.12

4q28.3-q31.1

1p12

203882_at

1

interferon-stimulated transcription factor 3, gamma 48 kDa

ISGF3G

0.19 (0.10)

0.006

1.79

4q28.3-q31.1

14q11.2

203675_at

2

nucleobindin 2

NUCB2

0.47 (0.17)

<0.001

3.15

4q28.3

11p15.1-p14

201195_s_at

 

solute carrier family 7, member 5

SLC7A5

0.16 (0.09)

0.01

1.59

4q31.1

16q24.3

201681_s_at

2

discs, large homolog 5 (Drosophila)

DLG5

0.22 (0.12)

0.005

2.05

4q31.1

10q23

202531_at

 

interferon regulatory factor 1

IRF1

0.21 (0.14)

0.02

2.80

4q31.1

5q31.1

202732_at

2

protein kinase (cAMP-dependent, catalytic) inhibitor gamma

PKIG

0.38 (0.11)

<0.001

1.78

4q31.1

20q12-q13.1

Principal component analysis, 15 transcripts factorc

N/A

0.29 (0.14)

0.001

1.99

4q28.3

N/A

   Group 1 factor 1 (loading MX2)

N/A

0.27 (0.13)

0.002

2.28

4q28.3

N/A

   Group 1 factor 2 (loading YWHAQ)

N/A

0.29 (0.13)

0.001

0.00

4q28.2-31.1

N/A

  1. aGroup 1 and 2 have transcripts correlated using bivariate analysis. Transcripts without correlation on bivariate analyses were not assigned a group.
  2. b H2, heritability; SE, standard error; N/A, not apply.
  3. c For principal component analysis, only factors with significant heritability (alpha = 0.05) are shown.