Skip to main content

Table 2 Comparison of qPCR versus RNA-seq of 23 selected DEGs in BEAS-2B cells exposed to diesel UFP. Numbers represent fold changes of separate experiments (n = 3) for each time point. Fold changes for both qPCR and RNA-seq are calculated considering exposed cells versus control cells after normalization. Pearson correlation between qPCR and RNA-seq FC for 4, 8, 16 and 20 h resulted in 0.759, 0.772, 0.715 and 0.774 respectively

From: Transcriptional profiling of human bronchial epithelial cell BEAS-2B exposed to diesel and biomass ultrafine particles

Gene symbol

qPCR (FC)

RNAseq (FC)

Biological annotations (GSEAe)

4 h

8 h

16 h

20 h

4 h

8 h

16 h

20 h

ALDH3A1

3.49

6.79

6.40

3.74

4.64

4.95

4.65

4.14

Enzyme

CCL5

1.78

1.78

−1.04

−1.71

1.85

1.19

1.63

−1.16

Secreted protein (NFK; INF)

CDKN1A

1.68

1.51

1.29

1.41

1.56

1.62

1.27

1.34

Transcription factor (NFK; INF)

CXCL2 a

−1.52

−1.04

2.01

3.24

1.28

1.37

1.26

2.09

Secreted protein (NFK; INF)

EPGN b

6.50

6.04

5.19

4.09

5.92

6.94

8.52

6.06

Secreted protein

FOSL1

1.37

1.87

1.94

1.27

1.29

1.75

1.70

1.98

Transcription factor (NFK)

GREM1 b

1.66

2.38

3.50

2.64

1.22

1.97

2.61

2.76

Secreted protein (EMT)

HES1

3.56

1.21

1.47

2.34

2.15

−1.19

1.26

1.28

Transcription factor (NFK)

HMOX1 b

3.70

2.95

2.51

2.34

3.46

2.48

1.16

1.35

Enzyme (XEN)

IER3

1.88

1.54

2.15

1.63

1.22

1.89

1.85

2.04

Secreted (NFK)

IGFBP1

4.20

2.86

3.73

1.95

4.21

4.73

3.82

3.71

Transcription factor (XEN)

IL1A

2.47

1.71

2.32

2.08

2.57

1.79

2.25

1.91

Secreted protein (NFK;INF)

IL1B

2.10

2.60

3.70

5.30

2.16

1.83

3.73

3.49

Secreted protein (NFK;INF)

LIF c

1.86

1.72

1.98

1.74

1.36

1.69

1.84

2.25

Secreted protein (NFK)

MAFF c

1.41

1.41

1.96

1.67

1.52

1.29

1.79

1.45

Transcription factor (NFK)

NFE2L2

−1.76

−1.08

1.26

1.94

1.64

1.26

1.28

1.13

Transcription factor (NFK)

PPP1R15A d

3.39

1.51

−1.12

1.07

2.24

1.88

1.18

1.17

ENZYME (NFK)

SLC16A6

3.86

1.58

1.05

2.09

4.09

1.78

1.37

1.29

Solute carrier (NFK)

SLC7A5

1.57

2.28

−1.08

2.90

1.25

1.82

1.77

1.98

Solute carrier

STC2 a

3.54

2.25

1.60

1.48

1.94

2.03

1.60

1.53

Secreted factor

TGIF1

2.37

1.41

1.15

1.18

1.77

1.23

1.34

1.34

Transcription factor (NFK)

TNFAIP3 a

−1.12

1.22

2.33

2.26

1.01

1.72

1.76

1.48

Transcription factor (NFK;INF)

TXNRD1 b

−1.04

1.92

1.57

2.14

1.43

1.54

1.51

1.55

Enzyme

  1. Gene included in next-maSigPro cluster analysis: acluster 2; bcluster 9; ccluster 8;dcluster 3
  2. eGSEA hallmarks gene set legend: NFK TNF-α signaling via NF-kB, INF inflammatory response, XEN, xenobiotic metabolism, EMT, epithelial mesenchymal transition
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us