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Table 4 Validation of microarray expression data by quantitative real-time PCR for 25 selected genes

From: Muscle transcriptomic profiles in pigs with divergent phenotypes for fatness traits

GENE

 

MICROARRAY

qPCR

Correlation

  

n = 68(34H vs 34L)

n = 20(10H vs 10L)

  
  

Ratio†

p-value

Ratio†

p-value

r*

p-value

ACACA

↑

1.42

0.003

2.23

0.047

0.77

0.0002

ADIPOR2

↑

1.39

0.001

1.49

0.354

0.59

0.0108

AGPAT2

↓

0.73

0.01

0.44

0.043

0.60

0.0099

APOE

↑

1.61

0.001

5.24

0.017

0.73

0.0006

CEBPD

↑

1.24

0.004

1.05

0.078

0.69

0.0016

CES3

↑

2.1

0.000003

3.41

0.008

0.83

< 0.0001

DGAT2

↑

2.68

0.001

1.91

0.048

0.83

< 0.0001

ELOVL6

↑

3.04

0.005

3.31

0.042

0.88

< 0.0001

FABP4

↑

1.32

0.0002

2.33

0.037

0.92

< 0.0001

FASN

↑

3.09

0.0008

2.54

0.046

0.88

< 0.0001

IGFBP5

↓

0.68

0.0007

0.50

0.025

0.83

< 0.0001

IRS2

↑

1.31

0.001

4.1

0.012

0.53

0.0231

LIPE

↑

4.21

0.000002

3.91

0.001

0.76

0.0002

LPIN1

↑

1.23

0.008

1.68

0.005

0.68

0.0018

MEF2A

↑

1.37

0.0002

1.68

0.037

0.63

0.0051

NPC1

↑

1.4

0.00006

3.69

0.018

0.48

0.0437

PIK3C2A

↑

1.54

0.009

2.98

0.021

0.68

0.0020

PIK3R1

↓

0.72

0.01

0.70

0.020

0.48

0.0424

PPARD

↑

1.28

0.008

1.57

0.021

0.53

0.0248

PPARG

↑

1.06

0.005

2.31

0.041

0.69

0.0016

PPARGC1A

↑

2.38

0.004

1.57

0.152

0.96

< 0.0001

RXRG

↓

0.68

0.002

1.12

0.621

-0.26

0.2911

SCD

↑

3.07

0.004

4.04

0.156

0.96

< 0.0001

TBC1D1

↑

1.17

0.0002

0.98

0.552

-0.16

0.5287

VEGFA

↑

1.26

0.009

1.69

0.032

0.48

0.0444

  1. Expression ratios and p-values are indicated for both assays and correlation coefficients between qPCR and microarray results are also shown.
  2. H = HIGH group; L = LOW group; †Expression ratios between H and L groups; *correlation coefficients between qPCR and microarray results; in bold, genes whose difference in expression between groups has been validated by qPCR. Arrows up and down indicate gene overexpression and downregulation in the HIGH group, respectively.
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BMC Genomics

ISSN: 1471-2164

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