Table 3

EASE results for differentially expressed genes identified in hybridization series 1 and 2

GO ID

GO term

Orthopedic biopsies

Arthroscopic biopsies

Rank

Number of hits

EASE score

Rank

Number of hits

EASE score

GO:0007154

Cell communication

1

685

4.63 × 10^-14

5

273

4.72 × 10^-6

GO:0007155

Cell adhesion

2

166

3.29 × 10^-10

7

72

8.51 × 10^-6

GO:0009607

Response to biotic stimulus

4

199

5.89 × 10^-9

3

90

1.30 × 10^-6

GO:0006952

Defense response

5

181

1.60 × 10^-8

2

84

7.69 × 10^-7

GO:0009605

Response to external stimulus

6

273

3.00 × 10^-8

1

126

1.56 × 10^-7

GO:0006955

Immune response

7

166

1.12 × 10^-7

4

78

1.63 × 10^-6

GO:0007166

Cell surface receptor linked signal transduction

9

209

1.24 × 10^-6

9

95

1.77 × 10^-5

GO:0007160

Cell-matrix adhesion

10

31

2.98 × 10^-5

121

9

2.32 × 10^-1

GO:0009613

Response to pest/pathogen/parasite

11

107

3.66 × 10^-5

6

55

6.78 × 10^-6

GO:0009611

Response to wounding

21

61

1.43 × 10^-3

8

36

1.44 × 10^-5

GO:0006954

Inflammatory response

53

40

1.89 × 10^-2

10

27

3.77 × 10^-5

GO:0007165

Signal transduction

3

533

4.69 × 10^-10

20

204

1.77 × 10^-3

GO:0009987

Cellular process

8

1,303

1.95 × 10^-7

15

519

4.28 × 10^-4

The table lists the top 10 gene ontology (GO) categories for the 4,175 genes that were differentially expressed between orthopedic biopsies and for the 1,536 differentially expressed genes that were found to vary between arthroscopic biopsies. Seven of the top 10 GO categories were common between the two biopsy types. In the columns headed 'Rank', category 1 is the most significant category and the category with the highest number is the least significant. EASE, Expression Analysis Systematic Explorer.

Lindberg et al. Arthritis Research & Therapy 2006 8:R47   doi:10.1186/ar1903