Download Wnt receptor signaling pathway

Table S4: Gene list of Wnt receptor signaling pathway, neurogenesis, and Wnt target genes
Genes of the selected GO categories are shown with their respective regulation indicated by either analysis method. Bold are the gene
symbols of genes with the highest fold changes, which were selected for confirmatory studies. In addition, Wnt target genes are listed.
Only fold changes indicated as significant by the respective method are shown.
Wnt receptor signaling pathway
Entrez
Gene ID
1452
1456
1457
27122
8321
8323
25776
Gene Symbol Gene Title
CSNK1A1
CSNK1A1
CSNK1A1
CSNK1A1
CSNK1G3
CSNK1G3
CSNK2A1
CSNK2A1
CSNK2A1
DKK3
DKK3
DKK3
DKK3
DKK3
DKK3
FZD1
FZD6
PGEA1
PGEA1
casein kinase 1, alpha 1
casein kinase 1, alpha 1
casein kinase 1, alpha 1
casein kinase 1, alpha 1
casein kinase 1, gamma 3
casein kinase 1, gamma 3
casein kinase 2, alpha 1 polypeptide
casein kinase 2, alpha 1 polypeptide
casein kinase 2, alpha 1 polypeptide
dickkopf homolog 3 (Xenopus laevis)
dickkopf homolog 3 (Xenopus laevis)
dickkopf homolog 3 (Xenopus laevis)
dickkopf homolog 3 (Xenopus laevis)
dickkopf homolog 3 (Xenopus laevis)
dickkopf homolog 3 (Xenopus laevis)
frizzled homolog 1 (Drosophila)
frizzled homolog 6 (Drosophila)
PKD2 interactor, golgi and endoplasmic
reticulum associated 1
PKD2 interactor, golgi and endoplasmic
reticulum associated 1
ChipInspector (FDR 0_max)
Transcript
Fold
Change
NM_001892
1.554
NM_001025105
1.554
NM_004384
NM_001031812
NM_001895
NM_177560
NM_177559
AK092979
NM_015881
NM_013253
NM_001018057
AK098756
AK090952
NM_003505
NM_003506
NM_015373
1.397
1.397
1.443
1.443
1.443
1.795
1.795
1.795
1.795
1.795
1.795
1.472
2.003
1.348
NM_001002880
1.348
RMA/SAM (q < 5%)
Probe Set ID Transcript
206562_s_at
213860_x_at
213086_s_at
208865_at
220768_s_at
NM_001892
AW268585
BF341845
BG534245
NM_004384
Fold
change
1.322
1.854
1.635
1.442
1.510
206075_s_at
NM_001895
1.349
214247_s_at
AU148057
2.335
204451_at
203987_at
203450_at
NM_003505
NM_003506
NM_015373
1.704
3.821
1.109
6422
7088
SFRP1
SFRP1
TLE1
secreted frizzled-related protein 1
NM_003012
secreted frizzled-related protein 1
AK127331
transducin-like enhancer of split 1 (E(sp1) NM_005077
homolog, Drosophila)
1.806
1.806
1.641
324
1500
APC
CTNND1
NM_000038
NM_001331
1.480
1.500
51339
DACT1
NM_016651
1.815
1856
10023
DVL2
DVL2
FRAT1
NM_004422
AK026019
NM_005479
1.412
1.412
1.416
23401
FRAT2
NM_012083
1.426
2487
FRZB
FRZB
FZD2
FZD7
PPP2R1A
adenomatosis polyposis coli
catenin (cadherin-associated protein),
delta 1
dapper, antagonist of beta-catenin,
homolog 1 (Xenopus laevis)
dishevelled, dsh homolog 2 (Drosophila)
dishevelled, dsh homolog 2 (Drosophila)
frequently rearranged in advanced T-cell
lymphomas
frequently rearranged in advanced T-cell
lymphomas 2
frizzled-related protein
frizzled-related protein
frizzled homolog 2 (Drosophila)
frizzled homolog 7 (Drosophila)
protein phosphatase 2 (formerly 2A),
regulatory subunit A (PR 65), alpha
isoform
protein phosphatase 2 (formerly 2A),
regulatory subunit A (PR 65), alpha
isoform
protein phosphatase 2 (formerly 2A),
regulatory subunit A (PR 65), alpha
isoform
protein phosphatase 2 (formerly 2A),
regulatory subunit A (PR 65), alpha
isoform
protein phosphatase 2 (formerly 2A),
regulatory subunit A (PR 65), beta isoform
sclerostin domain containing 1
sclerostin domain containing 1
transcription factor 7 (T-cell specific, HMG-
AK130009
NM_001463
NM_001466
NM_003507
AK130000
1.575
1.575
1.454
1.656
1.465
AK090488
1.465
AK091387
1.465
NM_014225
1.465
NM_002716
1.360
AK093408
NM_015464
NM_201632
1.568
1.568
1.657
2535
8324
5518
PPP2R1A
PPP2R1A
PPP2R1A
5519
PPP2R1B
25928
SOSTDC1
SOSTDC1
TCF7
6932
202037_s_at
202036_s_at
203221_at
NM_003012
AF017987
AI758763
2.100
1.579
2.287
TCF7
TCF7
TCF7
TCF7
7089
TLE2
TLE2
56998
1857
26959
51176
6934
CTNNBIP1
DVL3
HBP1
LEF1
TCF7L2
box)
transcription factor 7 (T-cell specific, HMGbox)
transcription factor 7 (T-cell specific, HMGbox)
transcription factor 7 (T-cell specific, HMGbox)
transcription factor 7 (T-cell specific, HMGbox)
transducin-like enhancer of split 2 (E(sp1)
homolog, Drosophila)
transducin-like enhancer of split 2 (E(sp1)
homolog, Drosophila)
NM_003202
1.657
NM_201634
1.657
NM_213648
1.657
AK131428
1.657
NM_003260
1.436
AK123183
1.436
catenin, beta interacting protein 1
dishevelled, dsh homolog 3 (Drosophila)
HMG-box transcription factor 1
lymphoid enhancer-binding factor 1
transcription factor 7-like 2 (T-cell specific,
HMG-box)
203081_at
201908_at
209102_s_at
221558_s_at
216511_s_at
NM_020248
NM_004423
AF019214
AF288571
AJ270770
0.805
1.225
1.158
1.849
1.305
Neurogenesis
ChipInspector (FDR 0_max)
Entrez
Gene ID
375790
Gene Symbol
Gene Title
Transcript
9915
AGRIN
AGRIN
AGRIN
AGRIN
ARNT2
AK125197
AK021586
NM_198576
AK128761
NM_014862
928
11113
CD9
CIT
NM_001769
NM_007174
1627
DBN1
DBN1
agrin
agrin
agrin
agrin
aryl-hydrocarbon receptor nuclear
translocator 2
CD9 molecule
citron (rho-interacting, serine/threonine
kinase 21)
drebrin 1
drebrin 1
Fold
Change
1.867
1.867
1.867
1.867
1.622
NM_004395
NM_080881
RMA/SAM (q < 5%)
Probe Set ID
Transcript
212285_s_at
217419_x_at
AW008051
AK021586
Fold
change
2.012
1.726
202986_at
NM_014862
1.603
1.770
1.523
201005_at
212801_at
NM_001769
AI861788
2.051
1.408
1.828
1.828
202806_at
NM_004395
1.437
7940
4137
4118
8829
56288
DBN1
LST1
LST1
LST1
LST1
LST1
MAPT
MAPT
MAPT
MAPT
MAPT
MAPT
MAL
MAL
MAL
MAL
MAL
NRP1
NRP1
PARD3
PARD3
PARD3
PARD3
PARD3
PARD3
5376
7869
PMP22
PMP22
PMP22
SEMA3B
drebrin 1
leukocyte specific transcript 1
leukocyte specific transcript 1
leukocyte specific transcript 1
leukocyte specific transcript 1
leukocyte specific transcript 1
microtubule-associated protein tau
microtubule-associated protein tau
microtubule-associated protein tau
microtubule-associated protein tau
microtubule-associated protein tau
microtubule-associated protein tau
mal, T-cell differentiation protein
mal, T-cell differentiation protein
mal, T-cell differentiation protein
mal, T-cell differentiation protein
mal, T-cell differentiation protein
neuropilin 1
neuropilin 1
par-3 partitioning defective 3 homolog
(C. elegans)
par-3 partitioning defective 3 homolog
(C. elegans)
par-3 partitioning defective 3 homolog
(C. elegans)
par-3 partitioning defective 3 homolog
(C. elegans)
par-3 partitioning defective 3 homolog
(C. elegans)
par-3 partitioning defective 3 homolog
(C. elegans)
peripheral myelin protein 22
peripheral myelin protein 22
peripheral myelin protein 22
sema domain, immunoglobulin domain
(Ig), short basic domain, secreted,
(semaphorin) 3B
AK094125
NM_205838
NM_205840
NM_205839
NM_205837
NM_007161
NM_016841
NM_016835
NM_016834
NM_005910
AK055986
AK095802
NM_002371
NM_022440
NM_022439
NM_022438
AK123269
NM_003873
NM_001024628
AK027735
1.828
1.803
1.803
1.780
1.780
1.780
0.513
0.513
0.513
0.513
0.488
0.513
1.603
1.603
1.603
1.603
1.603
2.086
1.530
1.434
NM_019619
1.434
AK024668
1.434
AK025892
1.434
AK024668
0.504
NM_019619
0.504
NM_153322
NM_153321
NM_000304
NM_004636
1.911
1.911
1.911
0.628
215633_x_at
214181_x_at
AV713720
AI735692
1.475
1.493
203928_x_at
206401_s_at
203929_s_at
AI870749
J03778
AI056359
0.477
0.415
0.383
204777_s_at
NM_002371
1.648
212298_at
BE620457
3.386
221526_x_at
AW452651
1.313
210094_s_at
AF196186
1.216
210139_s_at
L03203
1.544
203071_at
NM_004636
0.503
SEMA3B
SEMA3B
SEMA3B
6477
SIAH1
SIAH1
SIAH1
7070
7533
348
4897
5076
6091
THY1
THY1
THY1
THY1
THY1
YWHAH
APOE
NRCAM
NRCAM
NRCAM
PAX2
PAX2
PAX2
PAX2
PAX2
ROBO1
ROBO1
sema domain, immunoglobulin domain
(Ig), short basic domain, secreted,
(semaphorin) 3B
sema domain, immunoglobulin domain
(Ig), short basic domain, secreted,
(semaphorin) 3B
sema domain, immunoglobulin domain
(Ig), short basic domain, secreted,
(semaphorin) 3B
seven in absentia homolog 1
(Drosophila)
seven in absentia homolog 1
(Drosophila)
seven in absentia homolog 1
(Drosophila)
Thy-1 cell surface antigen
Thy-1 cell surface antigen
Thy-1 cell surface antigen
Thy-1 cell surface antigen
Thy-1 cell surface antigen
tyrosine 3-monooxygenase/tryptophan 5monooxygenase activation protein, eta
polypeptide
AK098329
0.628
NM_001005914
0.628
AK092182
0.628
NM_003031
1.383
AK094663
1.450
NM_001006610
1.450
NM_006288
AK094374
AK090644
AK090996
AK057865
NM_003405
0.430
0.430
0.533
0.430
0.430
1.957
apolipoprotein E
neuronal cell adhesion molecule
neuronal cell adhesion molecule
neuronal cell adhesion molecule
paired box gene 2
paired box gene 2
paired box gene 2
paired box gene 2
paired box gene 2
roundabout, axon guidance receptor,
homolog 1 (Drosophila)
roundabout, axon guidance receptor,
homolog 1 (Drosophila)
NM_000041
NM_005010
NM_001037132
NM_001037133
NM_003988
NM_003989
NM_003990
NM_000278
NM_003987
NM_133631
0.334
1.592
1.592
1.592
1.537
1.537
1.537
1.537
1.537
1.498
NM_002941
1.498
202981_x_at
NM_003031
1.182
208851_s_at
208850_s_at
213869_x_at
AL161958
AL558479
AA218868
0.276
0.339
0.238
201020_at
NM_003405
2.890
ROBO1
10505
SEMA4F
SEMA4F
9048
9637
ARTN
FEZ2
FEZ2
4983
9463
6277
8835
10417
51399
7311
OPHN1
PICK1
S100A6
SOCS2
SPON2
TRAPPC4
UBA52
roundabout, axon guidance receptor,
AK025535
homolog 1 (Drosophila)
sema domain, immunoglobulin domain
NM_004263
(Ig), transmembrane domain (TM) and
short cytoplasmic domain, (semaphorin)
4F
sema domain, immunoglobulin domain
AK095587
(Ig), transmembrane domain (TM) and
short cytoplasmic domain, (semaphorin)
4F
1.498
1.394
1.394
artemin
fasciculation and elongation protein zeta
2 (zygin II)
fasciculation and elongation protein zeta
2 (zygin II)
oligophrenin 1
protein interacting with PRKCA 1
S100 calcium binding protein A6
suppressor of cytokine signaling 2
spondin 2, extracellular matrix protein
trafficking protein particle complex 4
ubiquitin A-52 residue ribosomal protein
fusion product 1 /// ubiquitin A-52 residue
ribosomal protein fusion product 1
210237_at
215000_s_at
AF120274
AL117593
0.753
1.225
202305_s_at
AI685892
1.174
206323_x_at
204746_s_at
217728_at
203373_at
218638_s_at
217958_at
221700_s_at
NM_002547
NM_012407
NM_014624
NM_003877
NM_012445
NM_016146
AF348700
2.871
0.740
2.490
0.681
2.922
0.807
1.213
Wnt target genes
Entrez
Gene ID
5243
Gene Symbol
Gene Title
ABCB1
652
652
BMP4
BMP4
ATP-binding cassette, sub-family B
(MDR/TAP), member 1
bone morphogenetic protein 4
bone morphogenetic protein 4
ChipInspector (FDR 0_max)
RMA/SAM (q < 5%)
Transcript
Fold
Probe Set ID Transcript
Fold
Change
change
NM_000927
1.490
209993_at
AF016535
1.364
NM_130850
NM_130851
1.387
1.387
652
960
960
960
960
960
960
960
999
1948
1956
BMP4
CD44
CD44
CD44
CD44
CD44
CD44
CD44
CDH1
EFNB2
EGFR
1956
EGFR
2335
2335
2335
2335
2335
2335
2335
2335
8324
2697
FN1
FN1
FN1
FN1
FN1
FN1
FN1
FN1
FZD7
GJA1
182
688
4233
JAG1
KLF5
MET
4233
MET
4316
MMP7
4316
MMP7
bone morphogenetic protein 4
CD44 molecule (Indian blood group)
CD44 molecule (Indian blood group)
CD44 molecule (Indian blood group)
CD44 molecule (Indian blood group)
CD44 molecule (Indian blood group)
CD44 molecule (Indian blood group)
CD44 molecule (Indian blood group)
cadherin 1, type 1, E-cadherin (epithelial)
ephrin-B2
epidermal growth factor receptor
(erythroblastic leukemia viral (v-erb-b)
oncogene homolog, avian)
epidermal growth factor receptor
(erythroblastic leukemia viral (v-erb-b)
oncogene homolog, avian)
fibronectin 1
fibronectin 1
fibronectin 1
fibronectin 1
fibronectin 1
fibronectin 1
fibronectin 1
fibronectin 1
frizzled homolog 7 (Drosophila)
gap junction protein, alpha 1, 43kDa
(connexin 43)
jagged 1 (Alagille syndrome)
NM_001202
AK129808
NM_000610
NM_001001389
NM_001001391
NM_001001390
NM_001001392
AK127622
NM_004360
NM_004093
NM_201284
1.387
1.702
1.933
1.933
1.933
1.933
1.994
2.693
1.970
1.543
1.341
NM_005228
1.387
NM_212482
NM_212478
AK026737
NM_212476
NM_212475
AK094153
NM_002026
NM_212474
NM_003507
NM_000165
2.425
2.425
2.425
2.425
2.425
2.425
2.425
2.425
1.656
1.778
NM_000214
NM_001730
met proto-oncogene (hepatocyte growth NM_000245
factor receptor)
met proto-oncogene (hepatocyte growth AK025784
factor receptor)
matrix metallopeptidase 7 (matrilysin, AK222980
uterine)
matrix metallopeptidase 7 (matrilysin, NM_002423
uterine)
1.559
1.616
1.829
204489_s_at
204490_s_at
212014_x_at
209835_x_at
212063_at
NM_000610
M24915
AI493245
BC004372
BE903880
1.743
1.316
1.488
1.515
5.610
201131_s_at
202668_at
NM_004360 2.289
BF001670
1.743
210495_x_at
216442_x_at
212464_s_at
211719_x_at
AF130095
AK026737
X02761
BC005858
201667_at
NM_000165 3.080
216268_s_at
U77914
1.379
203510_at
BG170541
2.242
204259_at
NM_002423 16.212
3.263
3.288
3.740
3.905
1.939
7.961
7.961
4897
4897
4897
7074
NRCAM
NRCAM
NRCAM
TIAM1
neuronal cell adhesion molecule
neuronal cell adhesion molecule
neuronal cell adhesion molecule
T-cell lymphoma invasion and metastasis
1
NM_005010
NM_001037132
NM_001037133
AK124647
1.592
1.592
1.592
1.465
213135_at
U90902
2.062