Table 3

Genes differentially expressed in OA meniscal cells compared to normal meniscal cells.

Biological process

Gene Name

Gene ID

Differ

Exp

(fold)*

Description


Immune response


HLA-DPA1

M27487

5.3

Major histocompatibility complex, class II, DP alpha 1


IFI6

NM_022873

2.0

Interferon, alpha-inducible protein 6


CFH

X04697

1.7

Complement factor H


CTSS

NM_004079

1.6

Cathepsin S


FYN

S74774

1.5

FYN oncogene related to SRC, FGR, YES


ILF2

NM_004515

-1.3

Interleukin enhancer binding factor 2, 45 kDa


PSMB9

AI375915

-1.2

Proteasome (prosome, macropain) subunit, beta type, 9


Inflammatory

Response


ITGB2

NM_000211

6.6

Integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)


CFH

X04697

1.7

Complement factor H


BDKRB2

NM_000623

1.3

Bradykinin receptor B2


Cytokine production


SRGN

NM_002727

2.8

Serglycin


ARNT

AI768497

2.3

Aryl hydrocarbon receptor nuclear translocator


INHBA

M13436

1.9

Inhibin, beta A


Calcium ion transport


CACNA1C

F11066

1.5

Calcium channel, voltage-dependent, L type, alpha 1C subunit


FYN

S74774

1.5

FYN oncogene related to SRC, FGR, YES


CHRNB2

NM_000748

1.4

Cholinergic receptor, nicotinic, beta 2 (neuronal)


Biomineral formation


ENPP1

BF057080

1.7

Ectonucleotide pyrophosphatase/phosphodiesterase 1


SRGN

NM_002727

2.8

Serglycin


ACVR2A

AI149508

1.5

Activin A receptor, type IIA


Cell proliferation


ITGB2

NM_000211

6.6

Integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)


FGF7

NM_002009

4.1

Fibroblast growth factor 7 (keratinocyte growth factor)


ELN

AA479278

2.5

Elastin (supravalvular aortic stenosis, Williams-Beuren syndrome)


IGFBP7

NM_001553

2.4

Insulin-like growth factor binding protein 7


SKAP2

AB014486

2.2

Src kinase associated phosphoprotein 2


ARNT

AI768497

2.3

Aryl hydrocarbon receptor nuclear translocator


FOXO1

NM_002015

1.5

Forkhead box O1


BCAT1

AL390172

1.5

Branched chain aminotransferase 1, cytosolic


ACVR2A

AI149508

1.5

Activin A receptor, type IIA


TCF7L2

AA664011

1.4

Transcription factor 7-like 2 (T-cell specific, HMG-box)


CHRNB2

NM_000748

1.4

Cholinergic receptor, nicotinic, beta 2 (neuronal)


TCFL5

NM_006602

1.2

Transcription factor-like 5 (basic helix-loop-helix)


NRP1

AA609131

-1.3

Neuropilin 1


PHB

AL560017

-1.3

Prohibitin


TBX5

NM_000192

-1.3

T-box 5


NCK2

BC000103

-1.2

NCK adaptor protein 2


PRPF19

NM_014502

-1.2

PRP19/PSO4 pre-mRNA processing factor 19 homolog (S. cerevisiae)


Integrin-mediated signaling pathway


ITGB2

NM_000211

6.6

Integrin, beta 2


ITGB8

BF513121

3.6

Integrin, beta 8


ITGA11

AF109681

1.5

integrin, alpha 11


GAB2

NM_012296

1.5

GRB2-associated binding protein 2


Skeletal system/Tissue development


DSP

NM_004415

5.2

Desmoplakin


FGF7

NM_002009

4.2

Fibroblast growth factor 7 (keratinocyte growth factor)


SRGN

NM_002727

2.8

Serglycin


INHBA

M13436

1.9

Inhibin, beta A


TIMP3

AW338933

1.7

TIMP metallopeptidase inhibitor 3


ENPP1

BF057080

1.7

Ectonucleotide pyrophosphatase/phosphodiesterase 1


COL5A1

N30339

1.7

Collagen, type V, alpha 1


ACVR2A

AI149508

1.5

Activin A receptor, type IIA


FBN1

AW955612

1.4

Fibrillin 1


BARX1

NM_021570N

-1.9

BARX homeobox 1


GABBR1

NM_001470

-1.9

Gamma-aminobutyric acid (GABA) B receptor, 1


HOXA11

H94842

-1.5

Homeobox A11


CHST11

NM_018413

-1.5

Carbohydrate (chondroitin 4) sulfotransferase 11


NSDHL

BC000245

-1.4

NAD(P) dependent steroid dehydrogenase-like


ZNRD1

AF230337

-1.3

Zinc ribbon domain containing 1


SMURF1

AF199364

-1.3

SMAD specific E3 ubiquitin protein ligase 1


DNA repair


ZSWIM7

BE645222

-1.6

Zinc finger, SWIM-type containing 7


WDR33

AB044749

-1.5

WD repeat domain 33


ASF1A

NM_014034

-1.5

ASF1 anti-silencing function 1 homolog A (S. cerevisiae)


ATM

U82828

-1.3

ataxia telangiectasia mutated


PMS2L1

AI375694

-1.3

Postmeiotic segregation increased 2-like 1


ALKBH2

AI865555

-1.2

AlkB, alkylation repair homolog 2 (E. coli)


XRCC6

NM_001469

-1.2

X-ray repair complementing defective repair in Chinese hamster cells 6


DCLRE1A

D42045

-1.2

DNA cross-link repair 1A (PSO2 homolog, S. cerevisiae)


PRPF19

NM_014502

-1.2

PRP19/PSO4 pre-mRNA processing factor 19 homolog (S. cerevisiae)


ELN

AA479278

2.5

Elastin (supravalvular aortic stenosis, Williams-Beuren syndrome)


Cellular biosynthetic process


PITX2

NM_000325

-6.4

Paired-like homeodomain 2


NR3C2

NM_000901

-5.8

Nuclear receptor subfamily 3, group C, member 2


GALNT6

AW014155

-4.5

Polypeptide N-acetylgalactosaminyltransferase 6


RGMB

BE855765

-2.7

RGM domain family, member B


FOXF2

NM_001452

-2.2

Forkhead box F2


ZNF529

AL109722

-2.1

Zinc finger protein 529


BARX1

NM_021570

-1.9

BARX homeobox 1


DHODH

M94065

-1.9

Dihydroorotate dehydrogenase


LMO4

BC003600

-1.8

LIM domain only 4


BRWD1

NM_018963

-1.7

Bromodomain and WD repeat domain containing 1


TARS2

NM_025150

-1.7

Threonyl-tRNA synthetase 2, mitochondrial (putative)


HLX

M60721

-1.7

H2.0-like homeobox


BNC2

AI767962

-1.7

Basonuclin 2


PGD

NM_002631

-1.6

Phosphogluconate dehydrogenase


MEIS1

AL832770

-1.6

Meis homeobox 1


ZNF420

AI339586

-1.6

Zinc finger protein 420


ZFP28

AA831323

-1.5

Zinc finger protein 28 homolog (mouse)


CARS2

NM_024537

-1.5

Cysteinyl-tRNA synthetase 2, mitochondrial (putative)


HOXA11

H94842

-1.5

Homeobox A11


PDLIM1

BC000915

13.2

PDZ and LIM domain 1 (elfin)


ITGB2

NM_000211

6.6

Integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)


LMCD1

NM_014583

3.5

LIM and cysteine-rich domains 1


KRT7

BC002700

3.1

Keratin 7


ARNT

AI768497

2.3

Aryl hydrocarbon receptor nuclear translocator


ZNF415

NM_018355

2.2

Zinc finger protein 415


ZNF630

AK000580

2.0

Zinc finger protein 630


INHBA

M13436

1.9

Inhibin, beta A


GALNT1

U41514

1.7

Polypeptide N-acetylgalactosaminyltransferase 1


ENPP1

BF057080

1.7

Ectonucleotide pyrophosphatase/phosphodiesterase 1


Miscellaneous


PTGES

AF010316

3.2

Prostaglandin E synthase


ADAMTS5

NM_007038

1.7

ADAM metallopeptidase with thrombospondin type 1 motif, 5 (aggrecanase-2)


DSP

NM_004415

5.2

Desmoplakin


FMOD

NM_002023

2.7

Fibromodulin


sFRP4

AW089415

3.4

Secreted frizzled-related protein 4


MCAM

M28882

2.3

Melanoma cell adhesion molecule


TNXB

NM_004381

-1.3

Tenascin XB


FUS

NM_004960

-1.5

Fusion (involved in t(12;16) in malignant liposarcoma)


TBX5

NM_000192

-1.3

T-box 5


*Positive number indicates elevated expression (fold) in OA meniscal cells compared to normal meniscal cells. Negative number indicates decreased expression (fold) in OA meniscal cells compared to normal meniscal cells.

Sun et al. BMC Musculoskeletal Disorders 2010 11:19   doi:10.1186/1471-2474-11-19

Open Data