Table 3 Up-regulation of immune response genes in skeletal muscles of patients with active JDM longer than 2 months (Cluster C and D; genes are in order shown in figure 1)

Cluster C

203981_s_at

6.2E-03

1.5

ATP-binding cassette, sub-family D (ALD), member 4

210105_s_at

1.5E-03

1.6

FYN oncogene related to SRC, FGR, YES

214430_at

1.4E-03

1.6

galactosidase, alpha

200602_at

6.5E-04

2.0

amyloid beta (A4) precursor protein

201103_x_at

5.7E-03

1.4

hypothetical protein LOC200030

209765_at

2.3E-03

1.6

a disintegrin and metalloproteinase domain 19

216510_x_at

9.6E-04

5.6

immunoglobulin heavy constant gamma 1

201069_at

3.9E-03

2.0

matrix metalloproteinase 2

203473_at

1.1E-04

2.2

solute carrier organic anion transporter family, member 2B1

203742_s_at

1.9E-03

1.5

thymine-DNA glycosylase

205917_at

6.5E-04

1.6

ZNF264

212671_s_at

2.5E-04

5.6

major histocompatibility complex, class II, DQ alpha 1/2

Cluster D

218376_s_at

4.1E-03

2.5

NEDD9 interacting protein with calponin homology and LIM domains

209079_x_at

9.1E-04

1.6

protocadherin gamma subfamily

38671_at

5.9E-04

1.6

plexin D1

201279_s_at

2.0E-03

1.6

disabled homolog 2, mitogen-responsive phosphoprotein (Drosophila)

211066_x_at

6.5E-04

1.6

protocadherin gamma subfamily

215599_at

3.8E-04

2.1

SMA4

205717_x_at

1.8E-03

1.4

protocadherin gamma subfamily

217659_at

1.3E-03

1.6

KIAA0261

212607_at

1.1E-04

1.3

AKT3 (protein kinase B, gamma)

211748_x_at

4.0E-03

2.4

prostaglandin D2 synthase 21 kDa (brain)

215376_at

2.4E-04

1.4

CDNA FLJ12295 fis, clone MAMMA1001818

202259_s_at

1.1E-04

1.6

phosphonoformate immuno-associated protein 5

212187_x_at

2.1E-03

1.9

prostaglandin D2 synthase 21 kDa (brain)

206666_at

3.7E-04

2.5

granzyme K (serine protease, granzyme 3; tryptase II)

217947_at

5.9E-04

1.9

chemokine-like factor super family 6