Table S3. Lists of active pathways identified by SPIA on real cancer microarray data sets.
Cancer Type and GEO Number
Pathway ID and Name
bladder
GSE
7476
brain
GSE
12907
brain
GSE
15824
breast
GSE
8977
breast
GSE
22544
colon
GSE
41328
liver
liver
lung
GSE
14323
GSE
14520
GSE
10799
ovarian
GSE
14407
thyroid
thyroid
GSE
3678
GSE
6004
Total
Focal adhesion
X
X
X
X
X
X
X
X
X
X
X
X
12
Regulation of actin cytoskeleton
X
X
X
X
X
X
X
X
X
X
X
X
12
Small cell lung cancer
X
X
X
X
X
X
X
X
X
X
X
X
12
04512
ECM-receptor interaction
X
X
X
X
X
X
X
X
X
X
X
11
05215
Prostate cancer
X
X
X
X
X
X
X
11
04360
Axon guidance
X
X
X
X
X
10
05218
Melanoma
X
X
10
Gap junction
X
X
Pancreatic cancer
X
X
Tight junction
X
Renal cell carcinoma
X
X
05214
Glioma
X
X
05220
Chronic myeloid leukemia
X
X
04010
MAPK signaling pathway
X
04012
ErbB signaling pathway
X
04510
04810
05222
04540
05212
04530
05211
04060
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
9
X
X
X
X
X
X
8
X
8
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
Cytokine-cytokine receptor interaction
X
X
9
X
X
X
8
X
X
X
8
X
X
X
7
X
X
7
X
7
Cell cycle
X
Colorectal cancer
X
X
X
X
X
X
X
7
Endometrial cancer
X
X
X
X
X
X
X
7
05223
Non-small cell lung cancer
X
X
X
X
X
X
X
7
03320
PPAR signaling pathway
X
X
X
X
X
X
6
04020
Calcium signaling pathway
X
X
X
X
X
6
04210
Apoptosis
X
X
X
X
X
6
Wnt signaling pathway
X
X
X
X
X
X
6
TGF-beta signaling pathway
X
X
X
X
X
X
6
X
6
04110
05210
05213
04310
04350
04670
Leukocyte transendothelial migration
Pathogenic Escherichia coli infection
X
05131
Shigellosis
X
05322
Systemic lupus erythematosus
04115
p53 signaling pathway
05130
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
X
7
6
X
6
6
X
5
04370
04610
04730
05120
04612
Antigen processing and presentation
04662
04664
04912
04920
X
Complement and coagulation cascades
Long-term depression
Epithelial cell signaling in Helicobacter
pylori infection
04650
X
VEGF signaling pathway
X
X
X
Fc epsilon RI signaling pathway
X
05216
Thyroid cancer
05219
05221
04070
04150
04620
Bladder cancer
Acute myeloid leukemia
X
Phosphatidylinositol signaling system
X
X
04910
Insulin signaling pathway
X
Type II diabetes mellitus
05012
Parkinson's disease
X
Basal cell carcinoma
X
04080
04130
04140
Regulation of autophagy
X
X
4
X
4
X
4
X
3
X
X
X
X
X
X
X
X
3
3
X
X
3
3
X
X
3
3
X
3
X
X
X
3
2
X
2
X
2
X
X
2
X
2
X
2
X
Allograft rejection
Neuroactive ligand-receptor interaction
SNARE interactions in vesicular
transport
4
X
Notch signaling pathway
4
4
X
X
Melanogenesis
05330
X
Vibrio cholerae infection
04930
4
X
X
X
4
4
X
X
X
04916
X
X
X
X
05217
X
X
Type I diabetes mellitus
Long-term potentiation
4
X
X
X
X
X
04720
X
X
Circadian rhythm - mammal
04330
X
X
Toll-like receptor signaling pathway
5
X
X
5
X
4
X
X
5
5
X
X
X
X
T cell receptor signaling pathway
05110
X
X
mTOR signaling pathway
Huntington's disease
X
X
04710
05016
X
X
X
X
X
X
04660
04940
X
X
X
X
X
Adipocytokine signaling pathway
Amyotrophic lateral sclerosis (ALS)
X
X
X
Alzheimer's disease
X
X
X
05014
X
X
B cell receptor signaling pathway
05010
X
X
X
X
X
X
Natural killer cell mediated cytotoxicity
GnRH signaling pathway
X
X
2
X
1
X
X
1
1
04340
04630
04740
X
Hedgehog signaling pathway
1
X
Jak-STAT signaling pathway
Olfactory transduction
1
05320
Autoimmune thyroid disease
X
05332
Graft-versus-host disease
X
TOTAL
1
X
40
23
32
25
36
39
22
17
43
18
27
27
1
1