Supplemental Digital Content 2 -Table 2

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Supplemental Digital Content 2 -Table 2- Complete list of pathways associated with the genes
identified a differentially expressed between NA and IF/TA samples.
Category
ID
Name
Source
P-value
1.33E-
Pathway
hsa05332
Graft-versus-host disease
KEGG pathway
16
2.35E-
Pathway
hsa05330
Allograft rejection
KEGG pathway
15
5.12E-
Pathway
hsa04650
Natural killer cell mediated cytotoxicity
KEGG pathway
15
2.11E-
Pathway
hsa04940
Type I diabetes mellitus
KEGG pathway
13
2.02E-
Pathway
hsa04612
Antigen processing and presentation
KEGG pathway
12
1.74E-
Pathway
hsa04514
Cell adhesion molecules (CAMs)
il12_2path
Pathway
way
NCI-Nature
IL12-mediated signaling events
tcr_pathw
Pathway
ay
KEGG pathway
Curated
NCI-Nature
TCR signaling in naïve CD4+ T cells
Curated
11
3.50E11
3.38E10
4.19E-
Pathway
hsa05320
Autoimmune thyroid disease
KEGG pathway
10
6.25EPathway
hsa05340
Primary immunodeficiency
KEGG pathway
h_tcraPath Lck and Fyn tyrosine kinases in
Pathway
way
initiation of TCR Activation
10
1.06E-
CGAP BioCarta
09
1.31E-
Pathway
P00053
T cell activation
cd8tcrpath
Pathway
way
PantherDB
NCI-Nature
TCR signaling in naïve CD8+ T cells
Curated
09
2.77E09
6.39E-
Pathway
hsa04660
T cell receptor signaling pathway
KEGG pathway
TCRAPA
Pathway
THWAY
6.46ETCRAPATHWAY
MSigDB
h_tcytotox
Pathway
icPathway
athway
T Cytotoxic Cell Surface Molecules
CGAP BioCarta
pathway
T Helper Cell Surface Molecules
CGAP BioCarta
NCI-Nature
IL12 signaling mediated by STAT4
Curated
Inflammation mediated by chemokine
Pathway
P00031
09
6.46E-
il12_stat4
Pathway
09
6.46E-
h_thelperP
Pathway
09
and cytokine signaling
09
2.21E08
2.52E-
PantherDB
08
TCYTOT
OXICPAT
Pathway
HWAY
2.84ETCYTOTOXICPATHWAY
MSigDB
08
Pathway
h_ctlPath
CTL mediated immune response against
way
target cells
2.84ECGAP BioCarta
08
THELPE
RPATHW
Pathway
AY
2.84ETHELPERPATHWAY
MSigDB
CTLPAT
Pathway
HWAY
1.00ECTLPATHWAY
MSigDB
h_tcrPath
Pathway
way
08
07
2.10E-
T Cell Receptor Signaling
CGAP BioCarta
07
h_tcapopt
osisPathw
Pathway
Pathway
2.14E-
ay
HIV Induced T Cell Apoptosis
CGAP BioCarta
fcer1path
Fc-epsilon receptor I signaling in mast
NCI-Nature
way
cells
Curated
07
2.72E07
Activation of Csk by cAMP-dependent
Pathway
h_CSKPat
Protein Kinase Inhibits Signaling
hway
through the T Cell Receptor
4.64ECGAP BioCarta
07
8.41E-
Pathway
hsa04640
Hematopoietic cell lineage
KEGG pathway
07
CTLA4P
ATHWA
1.02E-
Pathway
Y
CTLA4PATHWAY
MSigDB
06
Pathway
TCAPOP
TCAPOPTOSISPATHWAY
MSigDB
1.11E-
TOSISPA
06
THWAY
ST_T_CE
LL_SIGN
AL_TRA
NSDUCTI ST_T_CELL_SIGNAL_TRANSDUCTI
Pathway
ON
ON
1.22EMSigDB
APOPTO
Pathway
Pathway
1.84E-
SIS
APOPTOSIS
h_ctla4Pat
The Co-Stimulatory Signal During T-
hway
cell Activation
cxcr4_pat
Pathway
hway
06
MSigDB
2.11ECGAP BioCarta
NCI-Nature
CXCR4-mediated signaling events
06
Curated
06
2.24E06
7.36E-
Pathway
hsa04662
B cell receptor signaling pathway
KEGG pathway
CSKPAT
Pathway
HWAY
7.81ECSKPATHWAY
MSigDB
AMIPAT
Pathway
HWAY
HWAY
06
7.81E-
AMIPATHWAY
MSigDB
TCRPAT
Pathway
06
06
1.54E-
TCRPATHWAY
MSigDB
05
1.62E-
Pathway
hsa05310
Asthma
KEGG pathway
05
Pathway
h_IL12Pat
IL12 and Stat4 Dependent Signaling in
hway
Th1 Development
1.80ECGAP BioCarta
05
NO2IL12
PATHWA
Pathway
Y
1.87ENO2IL12PATHWAY
bcr_5path
Pathway
Pathway
MSigDB
NCI-Nature
way
BCR signaling pathway
h_nktPath
Selective expression of chemokine
way
receptors during T-cell polarization
Curated
HWAY
2.37E05
2.47E-
CGAP BioCarta
IL12PAT
Pathway
05
05
6.13E-
IL12PATHWAY
MSigDB
05
1.22E-
Pathway
hsa04620
Toll-like receptor signaling pathway
KEGG pathway
04
1.23E-
Pathway
hsa04060
Cytokine-cytokine receptor interaction
KEGG pathway
nstreampa
Downstream signaling in naïve CD8+ T
NCI-Nature
thway
cells
Curated
04
cd8tcrdow
Pathway
il23pathw
Pathway
ay
NCI-Nature
IL23-mediated signaling events
Curated
D4GDIPA
1.80E04
3.16E04
3.39E-
Pathway
THWAY
D4GDIPATHWAY
MSigDB
Pathway
P00006
Apoptosis signaling
PantherDB
04
3.66E-
04
APOPTO
SIS_GEN
Pathway
MAPP
4.48EAPOPTOSISP
MSigDB
NKTPAT
Pathway
HWAY
04
1.09E-
NKTPATHWAY
MSigDB
03
TH1TH2P
ATHWA
Pathway
Y
1.16ETH1TH2PATHWAY
MSigDB
h_tcrmole
Pathway
cule
03
1.31E-
T Cell Receptor and CD3 Complex
CGAP BioCarta
03
BLYMPH
OCYTEP
ATHWA
Pathway
Y
1.43EBLYMPHOCYTEPATHWAY
PW:00002
Pathway
34
innate immune response
MSigDB
03
Pathway
1.43E-
Ontology
03
h_blymph
ocytePath
Pathway
way
1.43EB Lymphocyte Cell Surface Molecules
CGAP BioCarta
03
MONOC
YTEPAT
Pathway
HWAY
1.43EMONOCYTEPATHWAY
MSigDB
03
h_monocy
Pathway
tePathway
1.43EMonocyte and its Surface Molecules
CGAP BioCarta
03
h_granulo
Pathway
cytesPath
Adhesion and Diapedesis of
way
Granulocytes
1.51ECGAP BioCarta
h_d4gdiPa
Pathway
thway
03
1.51E-
D4-GDI Signaling
CGAP BioCarta
03
APOPTO
SIS_KEG
Pathway
G
1.94EAPOPTOSISG
MSigDB
h_th1th2P
Pathway
athway
03
1.99E-
Th1/Th2 Differentiation
CGAP BioCarta
03
NKCELL
SPATHW
Pathway
AY
1.99ENKCELLSPATHWAY
MSigDB
03
h_neutrop
hilPathwa
Pathway
y
2.12ENeutrophil and Its Surface Molecules
CGAP BioCarta
h_bbcellP
Pathway
athway
03
2.12E-
Bystander B Cell Activation
CGAP BioCarta
03
BBCELL
PATHWA
Pathway
Y
2.12EBBCELLPATHWAY
MSigDB
03
NEUTRO
PHILPAT
Pathway
HWAY
2.12ENEUTROPHILPATHWAY
MSigDB
h_il17Path
Pathway
way
2.84EIL 17 Signaling
il6_7path
Pathway
way
CGAP BioCarta
NCI-Nature
IL6-mediated signaling events
Curated
IL17PAT
Pathway
HWAY
way
03
3.99E03
5.06E-
IL17PATHWAY
pi3kcipath
Pathway
03
MSigDB
NCI-Nature
Class I PI3K signaling events
Curated
03
5.43E03
LYMPHO
CYTEPA
Pathway
THWAY
6.01ELYMPHOCYTEPATHWAY
MSigDB
03
h_lympho
cytePathw
Pathway
ay
6.01EAdhesion Molecules on Lymphocyte
CGAP BioCarta
03
CALCINE
URIN_NF
_AT_SIG
Pathway
NALING
6.05ECALCINEURIN_NF_AT_SIGNALING MSigDB
TCRMOL
Pathway
ECULE
03
7.45E-
TCRMOLECULE
MSigDB
03
CASPAS
EPATHW
Pathway
AY
8.10ECASPASEPATHWAY
MSigDB
03
8.14E-
Pathway
P00010
B cell activation
PantherDB
h_tnfr2Pat
Pathway
hway
8.60ETNFR2 Signaling
CGAP BioCarta
TNFR2PA
Pathway
THWAY
03
03
8.60E-
TNFR2PATHWAY
MSigDB
03
8.95E-
Pathway
163200 Electron Transport Chain
Reactome
Valine, leucine and isoleucine
Pathway
hsa00280
degradation
30
2.21E-
KEGG pathway
26
1.16E-
Pathway
hsa00190
Oxidative phosphorylation
KEGG pathway
25
2.52E-
Pathway
hsa05012
Parkinson's disease
KEGG pathway
21
OXIDATI
VE_PHO
SPHORY
Pathway
Pathway
1.59E-
LATION
OXIDATIVE_PHOSPHORYLATION
VALINE_
VALINE_LEUCINE_AND_ISOLEUCI
LEUCINE NE_DEGRADATION
MSigDB
17
1.98E-
MSigDB
17
_AND_IS
OLEUCI
NE_DEG
RADATI
ON
2.84EPathway
hsa05010
Alzheimer's disease
KEGG pathway
17
2.89E-
Pathway
71291 Metabolism of nitrogenous molecules
Reactome
17
8.95E-
Pathway
hsa05016
Huntington's disease
KEGG pathway
17
MAP0028
0_Valine_
leucine_an
d_isoleuci
Pathway
ne_degrad
MAP00280 Valine leucine and
ation
isoleucine degradation
PW:00000
Pathway
34
3.31EGenMAPP
Pathway
oxidative phosphorylation
Ontology
16
8.37E16
1.92E-
Pathway
hsa00071
Fatty acid metabolism
KEGG pathway
15
7.62E-
Pathway
PWY-561
glyoxylate cycle II
BioCyc
15
AERESP
Pathway
DON-
aerobic respiration -- electron donors
PWY
reaction list
3.08EBioCyc
14
5.46E-
Pathway
hsa00640
Propanoate metabolism
KEGG pathway
14
6.88E-
Pathway
hsa00650
Butanoate metabolism
KEGG pathway
14
5.32E-
Pathway
hsa00020
Citrate cycle (TCA cycle)
KEGG pathway
13
PROPAN
OATE_M
ETABOLI
Pathway
SM
5.32EPROPANOATE_METABOLISM
MSigDB
13
KREBS_T
CA_CYC
Pathway
LE
2.39EKREBS_TCACLE
MSigDB
Oxidative decarboxylation of pyruvate
Pathway
71406 and TCA cycle
11
7.35E-
Reactome
11
CITRATE
_CYCLE_
TCA_CY
5.96E-
Pathway
CLE
CITRATECLE_TCACLE
MSigDB
Pathway
MAP0064
MAP00640 Propanoate metabolism
GenMAPP
09
2.39E-
0_Propano
08
ate_metab
olism
PW:00000
Pathway
26
Pathway
citrate cycle
Ontology
2.39E08
MAP0007
1_Fatty_a
cid_metab
Pathway
Pathway
olism
2.53EMAP00071 Fatty acid metabolism
GenMAPP
PW:00000 valine, leucine and isoleucine
Pathway
71
Ontology
degradation
08
3.35E08
BUTANO
ATE_ME
TABOLIS
Pathway
M
6.40EBUTANOATE_METABOLISM
MSigDB
08
MAP0019
0_Oxidati
ve_phosph
Pathway
orylation
1.05EMAP00190 Oxidative phosphorylation
PW:00000
Pathway
43
GenMAPP
Pathway
pyruvate metabolic
Ontology
UBIQUIN
Pathway
ONE_BIO UBIQUINONE_BIOSYNTHESIS
07
1.20E07
1.22E-
MSigDB
07
SYNTHE
SIS
MAP0062
0_Pyruvat
e_metabol
Pathway
ism
2.19EMAP00620 Pyruvate metabolism
GenMAPP
07
MAP0065
0_Butanoa
te_metabo
Pathway
lism
2.42EMAP00650 Butanoate metabolism
GenMAPP
FAOPathway
PWY
07
2.56E-
fatty acid oxidation I
BioCyc
07
2.75E-
Pathway
hsa00620
Pyruvate metabolism
KEGG pathway
07
3.67E-
Pathway
TCA
TCA cycle -- aerobic respiration
BioCyc
07
TCA/GLY
Pathway
OX-
superpathway of glyoxylate
BYPASS
bypass+TCA
PW:00000
Pathway
64
3.67EBioCyc
Pathway
propanoate metabolic
Ontology
07
4.20E07
6.75E-
Pathway
hsa00380
Tryptophan metabolism
KEGG pathway
07
PYRUVA
TE_MET
ABOLIS
Pathway
M
1.14EPYRUVATE_METABOLISM
PW:00000
Pathway
73
lysine degradation
MSigDB
06
Pathway
3.54E-
Ontology
06
REDUCTI
VE_CAR
BOXYLA
TE_CYC
LE_CO2_
Pathway
FIXATIO
REDUCTIVE_CARBOXYLATECLE_
N
CO2_FIXATION
3.54EMSigDB
06
5.07E-
Pathway
hsa00410
beta-Alanine metabolism
KEGG pathway
06
GLYCOL
YSIS_AN
D_GLUC
ONEOGE
Pathway
NESIS
6.26ES_AND_GLUCONEOGENESIS
MSigDB
06
MAP0031
0_Lysine_
Pathway
degradatio
9.80EMAP00310 Lysine degradation
GenMAPP
06
n
P105Pathway
PWY
1.11ETCA cycle variation VIII
BioCyc
05
ARGININ
E_AND_P
ROLINE_
Pathway
METABO
ARGININE_AND_PROLINE_METAB
LISM
OLISM
PW:00000
Pathway
50
arginine and proline metabolic
1.94EMSigDB
05
Pathway
2.19E-
Ontology
05
MAP0002
0_Citrate_
cycle_TC
Pathway
A_cycle
4.75EMAP00020 Citrate cycle TCA cycle
GenMAPP
05
BETA_A
LANINE_
METABO
Pathway
LISM
5.11EBETA_ALANINE_METABOLISM
PW:00000
Pathway
58
fatty acid metabolic
MSigDB
05
Pathway
7.42E-
Ontology
Urea cycle and metabolism of amino
05
8.41E-
Pathway
hsa00220
groups
KEGG pathway
Pathway
GLYCOL
superpathway of glycolysis, pyruvate
BioCyc
05
1.21E-
YSIS/TC
dehydrogenase, TCA, and glyoxylate
A/GLYO
bypass
04
XBYPASS
MAP0038
0_Tryptop
han_meta
Pathway
bolism
1.48EMAP00380 Tryptophan metabolism
GenMAPP
ILEUDEG
Pathway
-PWY
04
3.99E-
isoleucine degradation I
BioCyc
04
TRYPTO
PHAN_M
ETABOLI
Pathway
SM
4.40ETRYPTOPHAN_METABOLISM
MSigDB
04
MAP0033
0_Arginin
e_and_pro
Pathway
line_meta
MAP00330 Arginine and proline
bolism
metabolism
5.53EGenMAPP
superpathway of glycolysis and TCA
Pathway
PWY1G-2 variant VIII
04
5.53E-
BioCyc
04
6.01E-
Pathway
hsa00010
Glycolysis / Gluconeogenesis
KEGG pathway
04
MAP0063
0_Glyoxyl
ate_and_d
icarboxyla
Pathway
te_metabo
MAP00630 Glyoxylate and
lism
dicarboxylate metabolism
6.45EGenMAPP
04
MAP0072
0_Reducti
ve_carbox
ylate_cycl
Pathway
e_CO2_fi
MAP00720 Reductive carboxylate cycle
xation
CO2 fixation
6.49EGenMAPP
04
MAP0006
2_Fatty_a
cid_biosy
Pathway
nthesis_pa
MAP00062 Fatty acid biosynthesis path
th_2
2
PW:00000
Pathway
77
54
GenMAPP
Pathway
beta-alanine metabolic
PW:00000
Pathway
6.49E-
Ontology
Pathway
tryptophan metabolic
Ontology
GLYCOL
Pathway
YSIS
04
8.78E04
9.17E04
1.17E-
GLYCOLYSIS
MSigDB
03
GLUCON
EOGENE
Pathway
SIS
1.17EGLUCONEOGENESIS
MSigDB
03
1.50E-
Pathway
P00051
TCA cycle
PantherDB
03
ILEUDEG2Pathway
PWY
1.67Eisoleucine degradation III
BioCyc
03
PHENYL
ALANIN
E-DEG1Pathway
PWY
1.67Ephenylalanine degradation I
PW:00000
Pathway
65
BioCyc
Pathway
butanoate metabolic
Ontology
03
1.77E03
1.77E-
Pathway
P04372
5-Hydroxytryptamine degredation
PantherDB
03
2.53E-
Pathway
73923 Lipid metabolism
PW:00000
Pathway
52
Reactome
Pathway
tyrosine metabolic
Ontology
03
3.34E03
GLYOXY
Pathway
LATE_A
GLYOXYLATE_AND_DICARBOXY
ND_DIC
LATE_METABOLISM
3.79EMSigDB
03
ARBOXY
LATE_M
ETABOLI
SM
MAP0025
2_Alanine
_and_aspa
Pathway
rtate_meta
MAP00252 Alanine and aspartate
bolism
metabolism
3.88EGenMAPP
03
4.04E-
Pathway
hsa00310
Lysine degradation
KEGG pathway
03
LYSINE_
DEGRAD
Pathway
ATION
4.10ELYSINE_DEGRADATION
MSigDB
03
MAP0001
0_Glycoly
sis_Gluco
neogenesi
Pathway
s
5.20EMAP00010 Glycolysis Gluconeogenesis GenMAPP
03
MITOCH
ONDRIA
L_FATTY MITOCHONDRIAL_FATTY_ACID_B
Pathway
_ACID_B
ETAOXIDATION
5.95EMSigDB
03
ETAOXI
DATION
MAP0041
0_beta_Al
anine_met
Pathway
abolism
5.95EMAP00410 beta Alanine metabolism
GenMAPP
03
ALANIN
E_AND_
ASPART
ATE_ME
Pathway
TABOLIS
ALANINE_AND_ASPARTATE_MET
M
ABOLISM
6.19EMSigDB
03
FATTY_
ACID_BI
OSYNTH
Pathway
ESIS_PA
FATTY_ACID_BIOSYNTHESIS_PAT
TH_2
H_2
6.95EMSigDB
Synthesis and degradation of ketone
Pathway
hsa00072
bodies
6.95EKEGG pathway
VALDEG
Pathway
-PWY
athway
03
7.74E-
valine degradation I
BioCyc
h_malateP
Pathway
03
03
8.53E-
Malate-aspartate shuttle
CGAP BioCarta
03
PYRUVD
EHYDPathway
PWY
8.53Epyruvate dehydrogenase
BioCyc
03
ADENOS
YLHOM
OCYSCA
Pathway
T-PWY
8.53Emethionine biosynthesis IV
BioCyc
GLUTOX
Pathway
A-PWY
03
8.53E-
glutamate degradation VII
BioCyc
03
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