Skip to main content

Table 4 Top ten up- and down- regulated genes expressed in rheumatoid arthritis synovial RNA

From: RNA-seq analysis of synovial fibroblasts brings new insights into rheumatoid arthritis

Gene

Description

Chr

RAFPKM

RA2FPKM

WT2FPKM

WT2FPKM

Avg.RA

Avg.WT

Foldchange

Ensembl gene ID

IL26

interleukin 26 solute carrier family 2 (facilitated

chr12

17.913

1.927

0.101

0.144

9.920

0.123

80.83

ENSG00000111536

SLC2A5

glucose/fructose transporter), member 5

chr1

65.268

21.844

0.340

3.851

43.556

2.096

20.79

ENSG00000142583

PLXDC2

plexin domain containing 2 v-maf musculoaponeurotic

chr10

9.222

2.316

0.098

0.573

5.769

0.335

17.21

ENSG00000120594

MAFB

fibrosarcoma oncogene homolog B (avian) solute carrier family 14 (urea

chr20

37.177

6.679

0.605

2.096

21.928

1.351

16.24

ENSG00000204103

SLC14A1

transporter), member 1 (Kidd blood group

chr18

6.188

2.096

0.360

0.177

4.142

0.269

15.41

ENSG00000141469

ADRA2A

adrenergic, alpha-2A-, receptor

chr10

4.373

10.666

0.899

0.145

7.519

0.522

14.42

ENSG00000150594

MAN1C1

mannosidase, alpha, class 1C, member 1

chr1

16.774

24.3346

0.65654

2.7991

20.554

1.728

11.90

ENSG00000117643

CFI

complement factor I solute carrier family 12

chr4

21.803

28.7589

0.10437

4.3263

25.281

2.215

11.41

ENSG00000205403

SLC12A8

(potassium/chloride transporters), member 8

chr3

7.442

15.2539

0.62851

1.4395

11.348

1.034

10.97

ENSG00000221955

THBS4

thrombospondin 4

chr5

5.8622

7.09226

0.05843

1.2202

6.477

0.639

10.13

ENSG00000113296

SERPINB2

serpin peptidase inhibitor, clade B (ovalbumin), member 2

chr18

0.236

0.095

16.207

10.030

0.166

13.118

−79.11

ENSG00000197632

AQP1

aquaporin 1 (Colton blood group)

chr7

5.675

3.860

396.183

25.802

4.768

210.992

−44.26

ENSG00000240583

APOBEC3B

apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3B

chr22

0.0775

0.23398

2.59902

7.4102

0.156

5.005

−32.13

ENSG00000179750

NEFM

neurofilament, medium polypeptide

chr8

0.0592

0.07122

3.69528

0.2014

0.065

1.948

−29.87

ENSG00000104722

CCDC3

coiled-coil domain containing 3

chr10

0.1241

0.09255

4.48673

1.7074

0.108

3.097

−28.59

ENSG00000151468

F10

coagulation factor X

chr13

0.197

0.21727

8.44739

2.9581

0.207

5.703

−27.53

ENSG00000126218

HHIP

hedgehog interacting protein

chr4

0.073

0.26532

7.88577

1.1075

0.169

4.497

−26.58

ENSG00000164161

ARL2-SNX15

-

chr11

0.361

0.39062

8.29552

11.168

0.376

9.732

−25.90

-

HES4

hairy and enhancer of split 4

chr1

0.3015

0.46829

16.2396

1.0894

0.385

8.664

−22.51

ENSG00000188290

GPAT2

glycerol-3-phosphate acyltransferase 2, mitochondrial

chr2

0.5547

0.36585

17.6005

3.0486

0.460

10.325

−22.43

ENSG00000186281

  1. Genes which were differentially expressed as determined by Cufflinks, after normalization to a panel of housekeeping genes. The fold change is the ratio of RASF FPKM to control FPKM. Genes with a fold change of 1.2-fold or greater were defined as significant. The genes were ranked on their fold change and the 10 with the highest or lowest fold changes are listed here.