Spreadsheet: ff71edcf-a42e-41db-9b63-3970aa5af7fb
Sheet: Sheet1

Table S3. GO “Biological process” Terms Frequencies for the Differentially Expressed Genes in Arthritic SFs and WJs, Selected from Both Subtractive Libraries and Microarrays | Unnamed: 1 | Unnamed: 2 | Unnamed: 3 | Unnamed: 4 | Unnamed: 5 | Unnamed: 6
Arthritic synovial fibroblasts (SF)
GO term | List freq. |  | Chip freq. |  | p value
30574;collagen catabolism | 2 |  | 9 |  | 9.98e-08
42044;fluid transport | 1 |  | 8 |  | 3.37e-05
6833;water transport | 1 |  | 8 |  | 3.37e-05
6957;complement activation, alternative pathway | 1 |  | 14 |  | 0.00010917
7015;actin filament organization | 1 |  | 15 |  | 0.00012588
6958;complement activation, classical pathway | 1 |  | 21 |  | 0.00025077
6950;response to stress | 3 |  | 308 |  | 0.00032571
9056;catabolism | 4 |  | 578 |  | 0.0003319
6955;immune response | 3 |  | 314 |  | 0.00035055
7266;Rho protein signal transduction | 1 |  | 26 |  | 0.00038683
30036;actin cytoskeleton organization and biogenesis | 1 |  | 39 |  | 0.00087446
6952;defense response | 3 |  | 411 |  | 0.000968
6508;proteolysis and peptidolysis | 3 |  | 412 |  | 0.00097683
9057;macromolecule catabolism | 3 |  | 420 |  | 0.00104953
30029;actin filament-based process | 1 |  | 43 |  | 0.00106284
6956;complement activation | 1 |  | 44 |  | 0.00111271
16064;humoral defense mechanism | 1 |  | 45 |  | 0.0011637
7018;microtubule-based movement | 1 |  | 46 |  | 0.0012158
9607;response to biotic stimulus | 3 |  | 455 |  | 0.00141324
45087;innate immune response | 1 |  | 66 |  | 0.00248681
7010;cytoskeleton organization and biogenesis | 2 |  | 301 |  | 0.00437733
9605;response to external stimulus | 3 |  | 624 |  | 0.00447236
6414;translational elongation | 1 |  | 92 |  | 0.0047709
6006;glucose metabolism | 1 |  | 100 |  | 0.00561211
6996;organelle organization and biogenesis | 2 |  | 365 |  | 0.00748304
19318;hexose metabolism | 1 |  | 122 |  | 0.00824837
7017;microtubule-based process | 1 |  | 135 |  | 0.01002212
Arthritic whole joints (WJ)
GO term |  | List freq. |  | Chip freq. |  | p value
9617;response to bacteria |  | 1 |  | 1 |  | 0
7011;regulation of cytoskeleton |  | 1 |  | 1 |  | 0
6952;defense response |  | 9 |  | 411 |  | 2.21e-07
6955;immune response |  | 8 |  | 314 |  | 2.49e-07
9607;response to biotic stimulus |  | 9 |  | 455 |  | 5.64e-07
6692;prostanoid metabolism |  | 2 |  | 11 |  | 3.89e-06
6693;prostaglandin metabolism |  | 2 |  | 11 |  | 3.89e-06
9056;catabolism |  | 9 |  | 578 |  | 4.89e-06
9605;response to external stimulus |  | 9 |  | 624 |  | 9.62e-06
6508;proteolysis and peptidolysis |  | 7 |  | 412 |  | 2.24e-05
6690;eicosanoid metabolism |  | 2 |  | 19 |  | 2.25e-05
9057;macromolecule catabolism |  | 7 |  | 420 |  | 2.57e-05
16066;cellular defence response |  | 1 |  | 4 |  | 5.1e-05
6937;regulation of muscle contraction |  | 2 |  | 30 |  | 9.2e-05
6936;muscle contraction |  | 3 |  | 85 |  | 0.000111
8220;necrosis |  | 1 |  | 6 |  | 0.000127
16271;tissue death |  | 1 |  | 6 |  | 0.000127
6950;response to stress |  | 5 |  | 308 |  | 0.000264
6928;cell motility |  | 4 |  | 197 |  | 0.00027
7160;cell-matrix adhesion |  | 2 |  | 47 |  | 0.000355
6935;chemotaxis |  | 2 |  | 48 |  | 0.000377
15669;gas transport |  | 1 |  | 13 |  | 0.000652
15671;oxygen transport |  | 1 |  | 13 |  | 0.000652
15674;di-, tri-valent inorganic cation transport |  | 2 |  | 60 |  | 0.000729
6629;lipid metabolism |  | 4 |  | 259 |  | 0.00094
45087;innate immune response |  | 2 |  | 66 |  | 0.000963
6958;complement activation, classical pathway |  | 1 |  | 21 |  | 0.001729
6511;ubiquitin-dependent protein catabolism |  | 2 |  | 107 |  | 0.003845
19941;protein-ligand dependent protein catabolism |  | 2 |  | 110 |  | 0.004155
9100;glycoprotein metabolism |  | 1 |  | 34 |  | 0.004509
6118;electron transport |  | 3 |  | 248 |  | 0.006004
6956;complement activation |  | 1 |  | 44 |  | 0.007463
16064;humoral defence mechanism |  | 1 |  | 45 |  | 0.007796
7229;integrin-mediated signalling pathway |  | 1 |  | 46 |  | 0.008135
7155;cell adhesion |  | 3 |  | 282 |  | 0.00937