01.12.2017 | Research article | Ausgabe 1/2017 Open Access

African-American esophageal squamous cell carcinoma expression profile reveals dysregulation of stress response and detox networks
- Zeitschrift:
- BMC Cancer > Ausgabe 1/2017
Electronic supplementary material
Background
Methods
Samples
RNA extraction
cRNA preparation and expression profiling
Microarray data analysis
Validation of results by real-time PCR
Pathway analysis
Results
Perturbed pathways and networks in African-American ESCC
Activation of NRF2 perturbs stress response and detoxification pathways in ESCC
GSE77861
|
GSE17351
|
GSE33810
|
GSE20347
|
||||||||
Gene
|
z-score
|
-log(p)
|
Gene
|
z-score
|
-log(p)
|
Gene
|
z-score
|
-log(p)
|
Gene
|
z-score
|
-log(p)
|
NFE2L2
|
3.8
|
7.5
|
NUPR1
|
4.7
|
10.1
|
mir-8
|
2.6
|
1.2
|
RABL6
|
5.8
|
26.7
|
MEK
|
2.7
|
1.2
|
CLDN7
|
3.9
|
7.9
|
let-7
|
2.6
|
0.3
|
FOXM1
|
4.4
|
14.2
|
LDL
|
2.8
|
0.5
|
MYOCD
|
3.8
|
6.0
|
LYN
|
2.4
|
0.6
|
IgG complex
|
3.7
|
21.9
|
CTNNB1
|
2.6
|
1.6
|
NR3C1
|
3.7
|
4.2
|
IL10RA
|
2.3
|
1.0
|
MITF
|
3.5
|
15.8
|
RABL6
|
2.5
|
2.1
|
I
RGM1
|
3.5
|
7.0
|
TRIM24
|
2.4
|
0.1
|
FOXO1
|
3.4
|
11.3
|
FOXM1
|
2.4
|
1.2
|
BNIP3L
|
3.4
|
8.2
|
miR-1-3p
|
2.2
|
0.8
|
RARA
|
3.3
|
16.2
|
CBX5
|
2.3
|
2.4
|
RBL2
|
3.2
|
4.8
|
IFI16
|
2.2
|
0.4
|
TLR7
|
3.3
|
4.2
|
ANGPT2
|
2.3
|
2.3
|
TP53
|
3.2
|
21.1
|
ZBTB16
|
2.2
|
2.0
|
PRL
|
3.3
|
8.1
|
PLIN5
|
2.2
|
2.2
|
IL1RN
|
3.1
|
4.3
|
miR-10
|
2.2
|
0.4
|
IFNL1
|
3.2
|
10.0
|
ANXA7
|
2.2
|
2.4
|
SRF
|
3.0
|
5.7
|
CDKN2A
|
2.1
|
0.1
|
TGFB1
|
3.2
|
46.3
|
TP53
|
−3.1
|
18.4
|
CSF2
|
−5.6
|
9.3
|
ERBB2
|
−3.2
|
8.2
|
TP53
|
−5.3
|
38.7
|
IL13
|
−3.0
|
0.7
|
RABL6
|
−4.1
|
8.9
|
SHH
|
−3.1
|
7.8
|
NUPR1
|
−4.4
|
19.5
|
CDKN2A
|
−3.0
|
2.6
|
SPP1
|
−4.1
|
5.3
|
IGFBP2
|
−3.1
|
7.5
|
SPDEF
|
−4.0
|
8.7
|
CD28
|
−2.8
|
2.0
|
EGFR
|
−3.8
|
14.0
|
TGFB3
|
−2.9
|
7.5
|
KDM5B
|
−3.4
|
12.6
|
EHF
|
−2.5
|
2.3
|
ERK1/2
|
−3.8
|
9.2
|
ERG
|
−2.9
|
7.0
|
HSF1
|
−3.3
|
6.7
|
CLDN7
|
−2.4
|
3.9
|
EGF
|
−3.7
|
9.9
|
CCTNB1
|
−2.7
|
7.1
|
CDKN1A
|
−3.3
|
9.5
|
let-7
|
−2.2
|
0.5
|
HGF
|
−3.6
|
17.1
|
CREB
|
−2.6
|
1.7
|
CLDN7
|
−3.1
|
6.7
|
ESRRA
|
−2.2
|
1.4
|
TNF
|
−3.4
|
3.9
|
WNT1
|
−2.5
|
0.6
|
BTK
|
−2.9
|
5.0
|
TCF3
|
−2.0
|
0
|
E2F1
|
−3.4
|
7.9
|
CCND1
|
−2.5
|
2.9
|
WISP2
|
−2.9
|
8.6
|
FGFR1
|
−2.0
|
0.8
|
FN1
|
−3.4
|
4.7
|
ERG2
|
−2.5
|
0.9
|
E2F6
|
−2.8
|
4.3
|
GSE29001
|
GSE33426
|
GSE45670
|
GSE23400
|
||||||||
Gene
|
z-score
|
-log(p)
|
Gene
|
z-score
|
-log(p)
|
Gene
|
z-score
|
-log(p)
|
Gene
|
z-score
|
-log(p)
|
RABL6
|
5.8
|
25.2
|
TGFB1
|
7.7
|
42.9
|
TNF
|
5.3
|
24.0
|
CSF2
|
5.0
|
14.4
|
HGF
|
5.7
|
39.5
|
TNF
|
7.2
|
15.1
|
ERBB2
|
4.9
|
21.3
|
RABL6
|
4.7
|
19.7
|
VEGF
|
5.3
|
32.7
|
VEGF
|
7.0
|
15.0
|
CSF
|
4.2
|
4.8
|
VEGF
|
4.4
|
32.3
|
FOXM1
|
5.0
|
19.4
|
HGF
|
6.9
|
22.0
|
EGFR
|
3.9
|
13.6
|
HGF
|
4.2
|
38.8
|
CSF2
|
5.0
|
30.7
|
ESR1
|
6.9
|
42.0
|
IFNL1
|
3.8
|
5.8
|
FOXM1
|
4.0
|
16.0
|
E2F1
|
4.6
|
28.1
|
EGF
|
6.5
|
12.0
|
I
FNG
|
3.7
|
21.3
|
ESR1
|
3.9
|
31.1
|
TBX2
|
4.4
|
13.0
|
CSF2
|
6.5
|
14.0
|
CCND1
|
3.7
|
18.5
|
ERBB2
|
3.7
|
56.4
|
E2F group
|
4.2
|
15.8
|
CTNNB1
|
6.3
|
13.0
|
IL1A
|
3.6
|
15.5
|
FN1
|
3.7
|
7.5
|
IFNA1
|
3.7
|
6.4
|
SMARCA4
|
6.2
|
11.0
|
RABL6
|
3.6
|
5.1
|
TBX2
|
3.6
|
12.2
|
IFNL1
|
3.6
|
13.0
|
IFNG
|
5.9
|
15.0
|
OSM
|
3.5
|
15.6
|
EGF
|
3.4
|
32.6
|
NUPR1
|
−6.2
|
15.6
|
let-7
|
−6.0
|
19.0
|
GATA4
|
−4.8
|
11.6
|
TP53
|
−5.2
|
53.0
|
let-7
|
−5.0
|
17.0
|
CD3
|
−5.1
|
15.0
|
IL10RA
|
−4.3
|
7.4
|
CDKN2A
|
−4.3
|
10.5
|
KDM5B
|
−4.5
|
10.7
|
SPDEF
|
−4.2
|
8.0
|
MYOCD
|
−3.9
|
11.2
|
let-7
|
−3.9
|
16.0
|
IRGM
|
−4.5
|
14.8
|
KDM5B
|
−4.1
|
7.5
|
IL1RN
|
−3.6
|
8.1
|
RB1
|
−3.8
|
17.7
|
TP53
|
−4.2
|
54.2
|
IRGM1
|
−4.0
|
9.0
|
IRGM1
|
−3.5
|
6.5
|
NR3C1
|
−3.5
|
7.9
|
SPDEF
|
−4.1
|
10.2
|
TRIM24
|
−4.9
|
4.0
|
HAND2
|
−3.3
|
5.7
|
SPDEF
|
−3.4
|
8.5
|
RBL2
|
−4.0
|
13.7
|
RB1
|
−3.9
|
14.0
|
SRF
|
−3.3
|
11.1
|
PPARG
|
−3.3
|
13.0
|
BNIP3L
|
−4.0
|
17.3
|
RBL2
|
−3.9
|
7.2
|
ACKR2
|
−3.2
|
5.3
|
let-7a-5p
|
−3.3
|
4.3
|
CDKN2A
|
−3.9
|
7.3
|
IL1RN
|
−3.8
|
2.2
|
PTEN
|
−3.2
|
5.0
|
IRGM1
|
−3.2
|
7.2
|
TRIM24
|
−3.8
|
18.2
|
CD28
|
−3.6
|
8.2
|
POU5F1
|
−3.0
|
2.4
|
CR1L
|
−3.1
|
8.9
|