Table 1

Gene ontology (GO) analysis of genes differentially expressed in control and proteoglycan-induced spondylitis (PGISp) mouse spines

GO category

GO term

Number of genes

LS permutation P-value

KS permutation P-value

Efron-Tibshirani's GSA test P-value

GO:0002252

immune effector process

225

0.00001

0.00196

< 0.005 (+)

GO:0002376

immune system process

995

0.00001

0.00002

0.005 (+)

GO:0002444

myeloid leukocyte mediated immunity

18

0.00001

0.00179

0.005 (+)

GO:0002682

regulation of immune system process

374

0.00001

0.01936

0.005 (+)

GO:0002684

positive regulation of immune system process

255

0.00001

0.00417

0.005 (+)

GO:0006954

inflammatory response

293

0.00001

0.00007

< 0.005 (+)

GO:0006955

immune response

562

0.00001

0.00001

0.005 (+)

GO:0032963

collagen metabolic process

30

0.00007

0.01778

0.005 (+)

Osteoblast genes

16

0.00105

0.00005

0.02 (+)

Gene expression levels in a number of inflammatory pathways, as well as an osteoblast gene set are altered in PGISp spine samples. LS, log summary; KS, Kolmogorov-Smirnov summary; GSA, gene set analysis.

Haynes et al. Arthritis Research & Therapy 2012 14:R253   doi:10.1186/ar4096