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Table 4 Genes differentially expressed in DA versus E3 rats 8 days after pristane injection

From: Differential gene expression in pristane-induced arthritis susceptible DA versus resistant E3 rats

   

Affymetrix

   

Accession no.

Gene ID

Significance

Pooled

Individual

Taqman

Custom-made

FACS

Upregulated

       

   X56596

MHC class I antigen RT1.B-1 β-chain (MhcII)

S

I (47.4)

I (43.4);

P < 0.0001

ND

I (2.8);

P < 0.1

I (1.9);

P < 0.03

   U24441

Metalloproteinase 9 (Mmp9)

T

I (5)

I (1.5);

P < 0.001

I (1.9);

P < 0.08

NC‡

ND

   S81478

CL100 protein tyrosine phosphatase (Ptpn16)

T

I (2.4)

NC*

ND

I (1.6);

P < 0.02

ND

Downregulated

       

   L07399

(Hybridoma 56R-7) immunoglobulin rearranged

γ-chain variable (Ig γ)

S

D (-6.4)

NC*

ND

D (-2.0);

P < 0.02

ND

   L07401

(Hybridoma 57R-1) immunoglobulin rearranged

γ-chain variable (Ig γ)

S

D (-62.4)

NC*

D (-2.1);

P < 0.03

NC‡

ND

   M14434

Immunoglobulin active κ-chain VJC region

from immunocytoma IR2 (Ig κ)

S

D (-34.7)

NC*

ND

D (-1.9);

P < 0.003

ND

   X00923

IgE heavy chain (Ig ε)

S

D (-28)

NC*

ND

D (-2.0);

P < 0.05

ND

   S81289

IgM κ-chain variable (Ig κ)

S

D (-9.3)

NC*

ND

D (-2.5);

P < 0.0003

ND

   M15402

Immunoglobulin active κ-chain VJ region

from immunocytoma IR162 (Ig κ)

S

D (-3.9)

NC*

ND

D (-3.0);

P < 0.006

ND

   nm_013121

CD28 (Cd28)

S

NC

NC*

ND

D (-2.2);

P < 0.01

D (-9.8);

P < 0.03

   S69206

Mast cell protease 1 (Mcpt1)

S

D (-4.7)

NC*

ND

D (-2.1);

P < 0.002

ND

   AB010635

Carboxylesterase precursor (Ces2)

S

D (-4.1)

NC*

ND

D (-2.5) ;

P < 0.003

ND

   D25290

K-cadherin (Cdh6)

S

D (-4.1)

NC*

ND

D (-1.7) ;

P < 0.01

ND

   X70871

Cyclin G1 (Ccng1)

S

D (-9.6)

D (-4.8);

P < 0.001

D †

NC‡

ND

   AJ011608

DNA polymerase α-subunit IV (Primase)

S

D (-3.3)

D (-2.6);

P < 0.001

D (-3.5);

P < 0.03

NC‡

ND

   L12025

Tumour-associated glycoprotein E4 (Tage)

T

D (-3.1)

NC*

ND

D (-1.8);

P < 0.1

ND

  1. To be regarded as differentially expressed a gene must be differentially expressed in two biological samples analyzed by a minimum of two independent methods. Differential expression values in bold text are statistically significant by that particular method. Genes significantly differentially expressed by a minimum of two independent methods are denoted 'S'. Another subset of genes showed a strong tendency toward differential expression; these are denoted 'T'. FACS, fluorescence activated cell sorting; NC, no change; ND, not determined. *These genes were not included among the 30 genes with highest probability of differential expression (t-test P < 0.002). †This gene was only detectable in the E3 rat. ‡For these genes, no statistically significant differential expression could be shown.
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Arthritis Research & Therapy

ISSN: 1478-6362

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