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Table 1 Differentially expressed genes identified by mRNA sequencing

From: Comparing atmospheric and hypoxic cultured mesenchymal stem cell transcriptome: implication for stem cell therapies targeting intervertebral discs

Gene symbol

Entrez gene name

Atmospheric (FPKM)

Hypoxic (FPKM)

Log2 (fold change)

p-value

q-value

Genes upregulated in hypoxia

 SFN

Stratifin

1.97

11.55

2.55

1.00E−04

4.47E−02

 AK4

Adenylate kinase 4

3.64

23.81

2.71

5.00E−05

2.62E−02

 TXNIP

Thioredoxin interacting protein

12.61

43.98

1.80

5.00E−05

2.62E−02

 BEND5

BEN domain containing 5

0.28

1.70

2.59

5.00E−05

2.62E−02

 KISS1

KiSS-1 metastasis-suppressor

4.29

38.05

3.15

5.00E−05

2.62E−02

 BNIP3

BCL2 interacting protein 3

47.81

215.64

2.17

5.00E−05

2.62E−02

 SERPING1

Serpin family G member 1

1.11

14.97

3.75

5.00E−05

2.62E−02

 DCHS1

Dachsous cadherin-related 1

0.32

1.60

2.35

5.00E−05

2.62E−02

 CYB5R2

Cytochrome b5 reductase 2

5.14

19.47

1.92

5.00E−05

2.62E−02

 CABP1

Calcium binding protein 1

0.08

2.49

4.93

5.00E−05

2.62E−02

 SERPINA9

serpin family A member 9

1.88

10.53

2.48

5.00E−05

2.62E−02

 FES

FES proto-oncogene, tyrosine kinase

1.88

8.97

2.25

5.00E−05

2.62E−02

 CALB2

Calbindin 2

2.97

14.79

2.32

5.00E−05

2.62E−02

 ABI3

ABI family member 3

0.18

2.54

3.84

5.00E−05

2.62E−02

 PIK3R6

Phosphoinositide-3-kinase regulatory subunit 6 

1.04

4.70

2.17

5.00E−05

2.62E−02

 KRT19

Keratin 19

14.18

57.12

2.01

5.00E−05

2.62E−02

 LDLRAD4

Low density lipoprotein receptor class A domain containing 4

0.08

0.62

2.91

5.00E−05

2.62E−02

 LYL1

LYL1, basic helix-loop-helix family member

0.45

3.08

2.78

5.00E−05

2.62E−02

 RASIP1

Ras interacting protein 1

3.72

19.51

2.39

5.00E−05

2.62E−02

 ACTG2

Actin, gamma 2, smooth muscle, enteric

1.79

6.37

1.83

1.00E−04

4.47E−02

 MYO7B

Myosin VIIB

0.11

1.02

3.23

5.00E−05

2.62E−02

 DES

Desmin

2.26

15.77

2.80

5.00E−05

2.62E−02

 HAAO

3-Hydroxyanthranilate 3,4-dioxygenase

0.37

1.71

2.20

1.00E−04

4.47E−02

 MALL

mal, T-cell differentiation protein like

0.72

4.07

2.51

5.00E−05

2.62E−02

 SPAG4

Sperm associated antigen 4

1.22

8.56

2.81

5.00E−05

2.62E−02

 FAM109B

Family with sequence similarity 109 member B

11.87

42.81

1.85

5.00E−05

2.62E−02

 SPON2

Spondin 2

1.61

5.73

1.83

1.00E−04

4.47E−02

 GPX3

Glutathione peroxidase 3

4.14

18.82

2.19

1.00E−04

4.47E−02

 MDFI

MyoD family inhibitor

2.38

15.85

2.74

5.00E−05

2.62E−02

 GUCA1A

Guanylate cyclase activator 1A

0.09

0.68

2.99

5.00E−05

2.62E−02

 TFR2

Transferrin receptor 2

0.15

0.93

2.67

5.00E−05

2.62E−02

 BARX1

BARX homeobox 1

1.10

8.74

3.00

5.00E−05

2.62E−02

Genes downregulated in hypoxia

 CXCL5

C-X-C motif chemokine ligand 5

5.22

0.21

− 4.66

5.00E−05

2.62E−02

 DL G2

Discs large MAGUK scaffold protein 2

0.27

0.05

− 2.32

5.00E−05

2.62E−02

  1. Fold changes represent hypoxia/normoxia FPKM values. p-value is the uncorrected p-value of the test statistic. q-value is the false discovery rate (FDR)-adjusted p-value of the test statistic. Statistical significance is based on the FDR-adjusted p-value