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Table 2 The top 10 candidate genes detected by TWAS and mRNA expression profile analysis for knee OA, CT, and SDH

From: Integrating transcriptome-wide study and mRNA expression profiles yields novel insights into the biological mechanism of chondropathies

Chondropathies

Genes

TWAS

mRNA expression

Tissue

P TWAS

FC

P mRNA

Knee OA

NSA2

MS/YBL

2.47 × 10−4/

3.30 × 10− 4

− 2.16

2.12 × 10− 2

CSF1R

YBL

3.95 × 10−4

3.47

2.83 × 10−2

MSC

YBL

9.51 × 10−4

4.41

2.03 × 10−2

CDK5R1

YBL

1.22 × 10−3

2.24

4.71 × 10−2

MMP24

MS

1.49 × 10−3

2.41

2.64 × 10−2

ARMC1

MS/ YBL

1.62 × 10−3/

8.76 × 10− 3

− 2.64

4.43 × 10− 2

NCK1

YBL

1.75 × 10−3

− 2.26

4.73 × 10−2

NME6

MS/YBL

9.93 × 10−3/

1.75 × 10− 3

− 2.93

2.22 × 10− 3

DDX20

YBL

1.79 × 10−3

2.69

1.15 × 10−2

SCARB1

YBL

2.55 × 10−3

− 3.27

6.75 × 10−3

CT

SRGN

YBL

1.46 × 10−3

3.36

4.18 × 10−2

ETS1

YBL

3.07 × 10−3

− 2.16

4.05 × 10−5

PFKFB3

YBL

4.28 × 10−3

3.66

7.00 × 10−3

CHURC1

MS/ YBL

1.59 × 10−2/

1.63 × 10− 2

− 2.01

1.36 × 10− 2

TRMT112

YBL

1.94 × 10−2

− 2.56

1.01 × 10−6

PLEKHA1

MS

2.29 × 10−2

− 2.62

7.66 × 10−5

AFF3

YBL

2.62 × 10−2

− 2.35

2.08 × 10−4

S100P

YBL

3.31 × 10−2

5.49

2.29 × 10−2

PSMC5

YBL

4.68 × 10−2

− 2.22

4.21 × 10−7

C1QTNF4

MS

4.96 × 10−2

3.32

2.38 × 10−5

SDH

SUPV3L1

YBL

3.59 × 10−3

3.22

–

ZNF195

YBL

6.67 × 10− 3

2.25

–

HBG2

YBL

2.36 × 10−2

3.91

–

VAMP4

YBL

4.77 × 10−2

2.23

–

  1. Note: MS denotes muscle skeleton. YBL denotes peripheral blood. FC denotes mRNA expression fold change. TWAS means transcriptome-wide association. PTWAS means the P value of TWAS. PmRNA means the P value of mRNA expression. The PmRNA of the mRNA expression profile of SDH was not reported in the published study