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Supplementary Table S3: Overview of the Functional associations in the serum response
between RA and OA fibroblasts within each anatomical site. The numbers represent “number of
genes increased”/”number of genes decreased” within each term.
Bone Marrow
OA
RA
46/0
37/0
51/0
42/0
77/0
59/0
71/0
54/0
47/0
32/0
OA
16/0
18/0
36/0
32/0
19/0
9/0
13/0
57/0
141/0
86/0
54/0
53/0
43/0
11/0
10/0
22/0
9/0
10/0
9/0
10/0
39/0
108/0
68/0
38/0
37/0
29/0
9/0
8/0
13/0
7/0
6/0
5/0
8/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
10/0
12/0
60/0
152/0
96/0
52/0
58/0
46/0
16/0
14/0
0/0
0/0
0/0
16/0
23/0
99/0
263/0
167/0
82/0
95/0
81/0
20/0
18/0
32/0
15/0
15/0
11/0
16/0
62/0
183/0
105/0
67/0
59/0
44/0
15/0
14/0
28/0
12/0
11/0
proliferation of pancreatic cancer cell
lines
interphase
synthesis of DNA
migration of lung cancer cell lines
proliferation of lung cancer cell lines
alignment of chromosomes
10/0
29/0
18/0
8/0
17/0
0/0
9/0
25/0
11/0
0/0
0/0
6/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
10/0
0/0
8/0
17/0
64/0
25/0
14/0
32/0
10/0
0/0
0/0
0/0
10/0
26/0
11/0
apoptosis of squamous cell carcinoma
cell lines
M phase of tumor cell lines
cytokinesis
invasion of lung cancer cell lines
apoptosis of cervical cancer cell lines
0/0
15/0
15/0
8/0
0/0
0/6
13/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
16/0
15/0
0/0
0/19
0/10
0/0
0/0
0/0
0/0
0/8
21/0
21/0
10/0
0/30
chromosomal congression of
chromosomes
0/0
0/0
0/0
4/0
0/0
5/0
cell movement of breast cancer cell
lines
migration of breast cancer cell lines
colony formation of tumor cell lines
colony formation
proliferation of ovarian cancer cell lines
colony formation of cells
21/0
20/0
18/0
28/0
10/0
26/0
15/0
14/0
12/0
18/0
8/0
16/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
migration of tumor cell lines
cell movement of tumor cell lines
cell movement
migration of cells
invasion of tumor cell lines
epithelial-mesenchymal transition of
tumor cell lines
epithelial-mesenchymal transition
cell survival
proliferation of cells
proliferation of tumor cell lines
invasion of cells
cell viability
cell viability of tumor cell lines
cell movement of carcinoma cell lines
migration of carcinoma cell lines
invasion of breast cancer cell lines
invasion of carcinoma cell lines
cell movement of lung cancer cell lines
Skin
RA
52/0
58/0
83/0
75/0
50/0
Synovium
OA
RA
79/0
57/0
87/0
65/0
132/0
101/0
121/0
92/0
74/0
61/0
proliferation of breast cancer cell lines
DNA replication
protein kinase cascade
Viral Infection
MAPKKK cascade
G1/S phase transition
metabolism of DNA
S phase of tumor cell lines
colony formation of breast cancer cell
lines
cytokinesis of tumor cell lines
M phase
proliferation of carcinoma cells
development of cardiovascular system
leukocyte migration
development of blood vessel
differentiation of tumor cell lines
synthesis of eicosanoid
tubulation of cells
synthesis of prostaglandin
transmigration of cells
mitogenesis
proliferation of smooth muscle cells
angiogenesis
organization of cytoskeleton
organization of cytoplasm
synthesis of fatty acid
neoplasia of cells
synthesis of prostaglandin E2
growth of epithelial tissue
vasculogenesis
synthesis of lipid
fatty acid metabolism
neoplasia of tumor cell lines
migration of leukemia cell lines
cell movement of myeloid cells
28/0
11/0
20/0
74/0
10/0
12/0
18/0
10/0
22/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
8/0
10/0
26/0
4/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
25/0
16/0
24/0
14/0
9/0
7/0
8/0
7/0
7/0
11/0
16/0
27/0
29/0
10/0
7/0
7/0
21/0
23/0
20/0
13/0
6/0
5/0
11/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
invasion of squamous cell carcinoma
cell lines
0/0
5/0
0/0
0/0
0/0
0/0
cell movement of squamous cell
carcinoma cell lines
activation of cells
chemotaxis of myeloid cells
chemotaxis of cells
invasion of breast cell lines
apoptosis of tumor cell lines
cell death of tumor cell lines
0/0
0/0
0/0
0/0
0/0
0/0
0/0
5/0
18/0
10/0
18/0
4/0
0/49
0/55
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
cell cycle progression
cell viability of lung cancer cell lines
proliferation of fibroblasts
adhesion of tumor cell lines
proliferation of carcinoma cell lines
proliferation of connective tissue cells
adhesion of breast cancer cell lines
cell movement of endothelial cells
proliferation of dermal cells
interphase of cervical cancer cell lines
necrosis
cell death of carcinoma cell lines
growth of connective tissue
proliferation of epithelial cells
migration of endothelial cells
interphase of tumor cell lines
cell cycle progression of tumor cell lines
sensitization of cells
development of body trunk
invasion of pancreatic cancer cell lines
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
40/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
14/0
8/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
8/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
103/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
42/0
30/0
7/0
19/0
9/0
0/0
11/0
14/0
26/0
24/0
25/0
9/0
28/0
8/0
9/0
0/128
0/17
26/0
13/0
26/0
0/0
0/0
0/0
0/0
0/0
growth of plasma membrane
projections
cell death
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
12/0
0/235
0/0
0/0
cell death of squamous cell carcinoma
cell lines
S phase
0/0
16/0
0/0
0/0
0/0
0/0
0/0
0/0
0/11
27/0
0/0
0/0
cell movement of pancreatic cancer cell
lines
cell viability of carcinoma cell lines
formation of mitotic spindle
migration of brain cancer cell lines
cell movement of brain cancer cell lines
homing of tumor cell lines
adhesion of epithelial cells
chemotaxis of tumor cell lines
proliferation of hepatoma cell lines
adhesion of kidney cells
cell death of kidney cells
shape change of embryonic cell lines
activation of vascular endothelial cells
cell movement of leukemia cell lines
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
4/0
10/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
4/0
0/0
0/0
0/0
0/0
10/0
11/0
10/0
9/0
9/0
16/0
7/0
19/0
4/0
5/0
10/0
8/0
15/0
0/9
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
7/0
12/0
0/9
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
0/0
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