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Table 1 Prediction Signature

From: A genomic biomarker signature can predict skin sensitizers using a cell-based in vitro alternative to animal tests

Gene Title

Gene Symbol

Entrez Gene ID

Affymetrix HuGene 1.0 ST ID

Validation Call frequency (%)

4-aminobutyrate aminotransferase

ABAT

18

7993126

30

abhydrolase domain containing 5

ABHD5

51099

8079153

85

alkaline ceramidase 2

ACER2

340485

8154563

95

ATP citrate lyase

ACLY

47

8015460

85

actin-related protein 10 homolog (S. cerevisiae)

ACTR10

55860

7974587

75

ADAM metallopeptidase domain 20

ADAM20

8748

7979927

35

aldehyde dehydrogenase 18 fam., member A1

ALDH18A1

5832

7935230

75

aldehyde dehydrogenase 1 fam., member B1

ALDH1B1

219

8155327

70

anaphase promoting complex subunit 1

ANAPC1

64682

8043349

55

anaphase promoting complex subunit 5

ANAPC5

51433

7967149

25

ankyrin repeat, fam. A (RFXANK-like), 2

ANKRA2

57763

8112596

100

ADP-ribosylation factor GTPase activating protein 3

ARFGAP3

26286

8076515

55

Rho GTPase activating protein 9

ARHGAP9

64333

7964436

75

ankyrin repeat and SOCS box-containing 7

ASB7

140460

7986433

65

ATPase, H+ transporting, lysosomal 38 kDa, V0 subunit d1//ATPase, H+ transporting, lysosomal 38 kDa, V0 subunit d1

ATP6V0D1//ATP6V0D1

9114//9114

8002041

10

ATPase, H+ transporting, lysosomal 9 kDa, V0 subunit e1

ATP6V0E1

8992

8110022

75

ATPase, H+ transporting, lysosomal 50/57 kDa, V1 subunit H

ATP6V1H

51606

8150797

100

B-cell CLL/lymphoma 7A

BCL7A

605

7959354

85

bridging integrator 2

BIN2

51411

7963289

80

bleomycin hydrolase

BLMH

642

8014008

15

brix domain containing 1//ribosome production factor 2 homolog (S. cerevisiae)

BXDC1//RPF2

84154//84154

8062211

40

chromosome 11 open reading frame 61

C11orf61

79684

7952445

55

chromosome 11 open reading frame 67//integrator complex subunit 4

C11orf67//INTS4

28971//92105

7942783

50

chromosome 12 open reading frame 57

C12orf57

113246

7953564

40

chromosome 13 open reading frame 18

C13orf18

80183

7971486

50

chromosome 15 open reading frame 24

C15orf24

56851

7987172

50

chromosome 19 open reading frame 46//alkB, alkylation repair homolog 6 (E. coli)

C19orf46//ALKBH6

163183//84964

8036242

30

chromosome 19 open reading frame 54

C19orf54

284325

8036956

95

chromosome 1 open reading frame 174

C1orf174

339448

7911897

40

chromosome 1 open reading frame 183

C1orf183

55924

7918552

85

chromosome 20 open reading frame 111

C20orf111

51526

8066402

65

chromosome 20 open reading frame 24

C20orf24

55969

8062326

20

chromosome 3 open reading frame 62//ubiquitin specific peptidase 4 (proto-oncogene)

C3orf62//USP4

375341//7375

8087374

40

chromosome 9 open reading frame 89

C9orf89

84270

8156404

100

coactivator-associated arginine methyltransferase 1

CARM1

10498

8025766

60

CD33 molecule

CD33

945

8030804

45

CD86 molecule

CD86

942

8082035

45

CD93 molecule

CD93

22918

8065359

50

cytochrome c oxidase subunit VIIa polypeptide 2 like

COX7A2L

9167

8051777

45

corticotropin releasing hormone binding protein

CRHBP

1393

8106418

45

chondroitin sulfate N-acetylgalactosaminyltransferase 2

CSGALNACT2

55454

7927146

90

cytochrome P450, fam. 51, subfam. A, polypeptide 1

CYP51A1

1595

8140864

85

DDRGK domain containing 1

DDRGK1

65992

8064601

60

DEAD (Asp-Glu-Ala-As) box polypeptide 19A

DDX19A

55308

7997059

95

DEAD (Asp-Glu-Ala-Asp) box polypeptide 21

DDX21

9188

7927936

60

24-dehydrocholesterol reductase

DHCR24

1718

7916432

100

7-dehydrocholesterol reductase

DHCR7

1717

7950067

80

DEAH (Asp-Glu-Ala-His) box polypeptide 33

DHX33

56919

8011861

100

DnaJ (Hsp40) homolog, subfam. B, member 4

DNAJB4

11080

7902512

100

DnaJ (Hsp40) homolog, subfam. B, member 9

DNAJB9

4189

8135480

25

DnaJ (Hsp40) homolog, subfam. C, member 5

DNAJC5

80331

8064208

10

DnaJ (Hsp40) homolog, subfam. C, member 9

DNAJC9

23234

7934320

55

DNA-damage regulated autophagy modulator 2//choline/ethanolamine phosphotransferase 1

DRAM2//CEPT1

128338//10390

7918474

100

D-tyrosyl-tRNA deacylase 1 homolog (S. cerevisiae)

DTD1

92675

8061211

45

ER degradation enhancer, mannosidase alpha-like 2

EDEM2

55741

8065855

80

ecotropic viral integration site 2B

EVI2B

2124

8014063

60

fam. with sequence similarity 36, member A//non-protein coding RNA 201

FAM36A//NCRNA00201

116228//284702

7911085

15

fam. with sequence similarity 86, member A

FAM86A

196483

7999304

25

Fas (TNF receptor superfam., member 6)

FAS

355

7929032

70

fatty acid synthase

FASN

2194

8019392

100

F-box protein 10//translocase of outer mitochondrial membrane 5 homolog (yeast)

FBXO10//TOMM5

26267//401505

8161229

40

MGC44478

FDPSL2A

619190

8140443

55

ferredoxin reductase

FDXR

2232

8018236

40

forkhead box O4

FOXO4

4303

8168205

80

ferritin, heavy polypeptide-like 5

FTHL5

2509

8126948

95

fucosidase, alpha-L- 2, plasma

FUCA2

2519

8129974

20

growth arrest-specific 2 like 3

GAS2L3

283431

7957850

70

ganglioside induced differentiation associated protein 2

GDAP2

54834

7918955

80

growth differentiation factor 11

GDF11

10220

7956026

65

glutaredoxin (thioltransferase)

GLRX

2745

8113214

90

guanine nucleotide binding protein-like 3 (nucleolar)-like

GNL3L

54552

8167797

85

glucosamine-phosphate N-acetyltransferase 1

GNPNAT1

64841

7979196

90

glutathione reductase

GSR

2936

8150112

40

GTF2I repeat domain containing 2//GTF2I repeat domain containing 2B

GTF2IRD2//GTF2IRD2B

84163//389524

8133549 and 8140170

50 and 30

general transcription factor IIIC, polypeptide 2, beta 110 kDa

GTF3C2

2976

8051075

55

HMG-box transcription factor 1//component of oligomeric golgi complex 5

HBP1//COG5

26959//10466

8135392

65

histone cluster 1, H1c

HIST1H1C

3006

8124397

45

histone cluster 1, H1e

HIST1H1E

3008

8117377

95

histone cluster 1, H2ae

HIST1H2AE

3012

8117408

45

histone cluster 1, H2be

HIST1H2BE

8344

8117389

15

histone cluster 1, H3g

HIST1H3G

8355

8124440

35

histone cluster 1, H3j

HIST1H3J

8356

8124537

60

histone cluster 1, H4a

HIST1H4A

8359

8117334

10

histone cluster 2, H2ac//histone cluster 2, H2aa3//histone cluster 2, H2aa4

HIST-2H2AC//2H2AA3//2H2AA4

8338//8337//723790

7905079 and 7919619

75 and 75

histone cluster 2, H2bf//histone cluster 2, H2be//histone cluster 2, H2ba

HIST-2H2BF//2H2BE//2H2BA

440689//8349//337875

7919606

50

high-mobility group box 3

HMGB3

3149

8170468

5

3-hydroxy-3-methylglutaryl-Coenzyme A reductase//3-hydroxy-3-methylglutaryl-CoA reductase

HMGCR//HMGCR

3156//3156

8106280

90

3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1 (soluble)//3-hydroxy-3-methylglutaryl-CoA synthase 1 (soluble)

HMGCS1//HMGCS1

3157//3157

8111941

80

heme oxygenase (decycling) 1

HMOX1

3162

8072678

10

heterogeneous nuclear ribonucleoprotein L

HNRNPL

3191

8036613

30

insulin receptor substrate 2

IRS2

8660

7972745

35

iron-sulfur cluster scaffold homolog (E. coli)

ISCU

23479

7958414

100

interferon stimulated exonuclease gene 20 kDa-like 2

ISG20L2

81875

7921110

45

potassium voltage-gated channel, Isk-related fam., member 3

KCNE3

10008

7950409

25

keratinocyte growth factor-like protein 1//fibroblast growth factor 7 (keratinocyte growth factor)//keratinocyte growth factor-like protein 2//hypothetical protein FLJ20444

KGFLP1//FGF7//KGFLP2//FLJ20444

387628//2252//654466//403323

8155530

70

lysophosphatidic acid receptor 1

LPAR1

1902

8163257

10

leucine-rich PPR-motif containing

LRPPRC

10128

8051882

65

lymphocyte antigen 96

LY96

23643

8146934

35

mitogen-activated protein kinase kinase 1//small nuclear RNA activating complex, polypeptide 5, 19 kDa

MAP2K1//SNAPC5

5604//10302

7984319

30

mitogen-activated protein kinase 13

MAPK13

5603

8119016

60

methyltransferase like 2A

METTL2A

339175

8009008

45

microsomal glutathione S-transferase 3

MGST3

4259

7906978

70

mitochondrial ribosomal protein L30

MRPL30

51263

8043848

30

mitochondrial ribosomal protein L4

MRPL4

51073

8025586

40

mitochondrial ribosomal protein S17//glioblastoma amplified sequence//zinc finger protein 713

MRPS17//GBAS//ZNF713

51373//2631//349075

8132922

60

mitochondrial poly(A) polymerase//golgi autoantigen, golgin subfam. a, 6 pseudogene

MTPAP//LOC729668

55149//729668

7932834

45

5-methyltetrahydrofolate-homocysteine methyltransferase

MTR

4548

7910752

15

neighbor of BRCA1 gene 1

NBR1

4077

8007471

20

nuclear import 7 homolog (S. cerevisiae)

NIP7

51388

7996934

75

NLR fam., pyrin domain containing 12

NLRP12

91662

8039096

35

nucleolar protein fam. 6 (RNA-associated)

NOL6

65083

8160682

95

NAD(P)H dehydrogenase, quinone 1

NQO1

1728

8002303

45

nuclear receptor binding protein 1

NRBP1

29959

8040927

20

nucleotide binding protein-like

NUBPL

80224

7973826

10

nudix (nucleoside diphosphate linked moiety X)-type motif 14

NUDT14

256281

7981566

35

nuclear fragile × mental retardation protein interacting protein 1

NUFIP1

26747

7971361

60

nucleoporin 153 kDa

NUP153

9972

8124059

25

olfactory receptor, fam. 5, subfam. B, member 21

OR5B21

219968

7948330

50

PAS domain containing serine/threonine kinase

PASK

23178

8060205

55

PRKC, apoptosis, WT1, regulator

PAWR

5074

7965112

30

PDGFA associated protein 1

PDAP1

11333

8141273

35

phosphodiesterase 1B, calmodulin-dependent

PDE1B

5153

7955943

85

phosphoribosylformylglycinamidine synthase

PFAS

5198

8004804

60

pleckstrin homology-like domain, fam. A, member 3

PHLDA3

23612

7923372

75

phosphoinositide-3-kinase adaptor protein 1

PIK3AP1

118788

7935337

20

PTEN induced putative kinase 1

PINK1

65018

7898663

70

phosphomannomutase 2

PMM2

5373

7993148

65

partner of NOB1 homolog (S. cerevisiae)

PNO1

56902

8042381

40

polymerase (RNA) II (DNA directed) polypeptide E, 25 kDa

POLR2E

5434

8032149

80

polymerase (RNA) III (DNA directed) polypeptide E (80 kD)

POLR3E

55718

7993973

30

protein phosphatase 1D magnesium-dependent, delta isoform//protein phosphatase, Mg2+/Mn2+ dependent, 1D

PPM1D//PPM1D

8493//8493

8008922

80

phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1

PREX1

57580

8066848

100

proline-serine-threonine phosphatase interacting protein 1

PSTPIP1

9051

7985099

95

prothymosin, alpha

PTMA

5757

7954006 and 7961022

20 and 15

RAB33B, member RAS oncogene fam.

RAB33B

83452

8097507

40

renin binding protein

RENBP

5973

8175933

65

replication factor C (activator 1) 2, 40 kDa

RFC2

5982

8140151

30

ribonuclease H1

RNASEH1

246243

8050079

90

ring finger protein 146

RNF146

81847

8121927

50

ring finger protein 24

RNF24

11237

8064766

100

ring finger protein 26

RNF26

79102

7944510

95

ribosomal protein SA//small nucleolar RNA, H/ACA box 62

RPSA//SNORA62

3921//6044

8078918

75

RNA pseudouridylate synthase domain containing 2

RPUSD2

27079

7982753

45

ribosomal RNA processing 12 homolog (S. cerevisiae)

RRP12

23223

7935425

75

retinoid × receptor, alpha

RXRA

6256

8159127

5

scavenger receptor class B, member 2

SCARB2

950

8101158

70

SERPINE1 mRNA binding protein 1

SERBP1

26135

7916836

95

splicing factor proline/glutamine-rich (polypyrimidine tract binding protein associated)//splicing factor proline/glutamine-rich

SFPQ//SFPQ

6421//6421

7914791

40

solute carrier fam. 25, member 32//DDB1 and CUL4 associated factor 13

SLC25A32//DCAF13

81034//25879

8152255

100

solute carrier fam. 35, member B3

SLC35B3

51000

8123825

40

solute carrier fam. 37 (glucose-6-phosphate transporter), member 4

SLC37A4

2542

7952132

55

solute carrier fam. 5 (sodium-dependent vitamin transporter), member 6

SLC5A6

8884

8051030

95

sphingomyelin phosphodiesterase 4, neutral membrane (neutral sphingomyelinase-3)

SMPD4

55627

8055183

40

small nucleolar RNA host gene 1 (non-protein coding)//small nucleolar RNA, C/D box 26

SNHG1//SNORD26

23642//9302

7948908

20

small nucleolar RNA host gene 12 (non-protein coding)

SNHG12

85028

7914202

10

small nucleolar RNA, H/ACA box 45

SNORA45

677826

7938293

25

sorting nexin fam. member 27

SNX27

81609

7905444

35

spinster homolog 2 (Drosophila)//MYB binding protein (P160) 1a

SPNS2//MYBBP1A

124976//10514

8011640

45

sprouty homolog 2 (Drosophila)

SPRY2

10253

7972217

75

squalene epoxidase

SQLE

6713

8148280

95

sterol regulatory element binding transcription factor 2

SREBF2

6721

8073522

45

ST3 beta-galactoside alpha-2,3-sialyltransferase 6

ST3GAL6

10402

8081219

100

serine/threonine kinase 17b

STK17B

9262

8057887

90

transmembrane anterior posterior transformation 1

TAPT1

202018

8099506

65

taste receptor, type 2, member 5

TAS2R5

54429

8136647

40

tubulin folding cofactor E-like

TBCEL

219899

7944623

55

tectonic fam. member 2

TCTN2

79867

7959638

40

toll-like receptor 6

TLR6

10333

8099841

30

transmembrane protein 150B

TMEM150B

284417

8039453

25

transmembrane protein 55A

TMEM55A

55529

8151756

90

transmembrane protein 59

TMEM59

9528

7916372

90

transmembrane protein 97

TMEM97

27346

8005839

95

tumor necrosis factor receptor superfam., member 10c, decoy without an intracellular domain

TNFRSF10C

8794

8145244

75

translocase of outer mitochondrial membrane 34

TOMM34

10953

8066461

35

translocase of outer mitochondrial membrane 40 homolog (yeast)

TOMM40

10452

8029521

40

tumor protein p53 inducible protein 3

TP53I3

9540

8050702

30

tumor protein p53 inducible nuclear protein 1

TP53INP1

94241

8151890

100

twinfilin, actin-binding protein, homolog 2 (Drosophila)//toll-like receptor 9

TWF2//TLR9

11344//54106

8087860

65

thioredoxin reductase 1

TXNRD1

7296

7958174

55

ubiquitin-fold modifier conjugating enzyme 1

UFC1

51506

7906662

95

ubiquitin specific peptidase 10

USP10

9100

7997633

30

vesicle-associated membrane protein 3 (cellubrevin)

VAMP3

9341

7897370

40

valyl-tRNA synthetase

VARS

7407

8125091 and 8178609

10 and 10

vacuolar protein sorting 37 homolog A (S. cerevisiae)

VPS37A

137492

8144774

60

zinc finger protein 211

ZNF211

10520

8031792

45

zinc finger protein 223

ZNF223

7766

8029360

65

zinc finger protein 561

ZNF561

93134

8033795

60

zinc finger protein 79

ZNF79

7633

8158022

100

---

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7910385

40

---

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7946567

15

---

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---

7966223

45

---

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7979694

40

---

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8130495

30

---

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---

8180237

60

---

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---

8180268

85

---

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8180417

85

  1. The table shows the biomarker genes found by t-test and Backward Elimination. Genes were annotated, using the NetAffx database from Affymetrix (http://www.affymetrix.com, Santa Clara USA). When found, the Entrez Gene ID http://www.ncbi.nlm.nih.gov/gene was chosen as the gene identifier. The validation call frequency (%) is the occurrence of each gene in the 20 Test Gene Signatures obtained in the validation step.