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Table 1 Classification of common differentially regulated temporal gene expression responses to TCDD in both in vitro and in vivo models

From: In vivo – in vitro toxicogenomic comparison of TCDD-elicited gene expression in Hepa1c1c7 mouse hepatoma cells and C57BL/6 hepatic tissue

Accession

Gene name

Gene symbol

Entrez Gene ID

In vivo

In vitro

    

Fold changea

Time pointsb

EC50c,d (μg/kg)

Fold changea

Time pointsb

EC50c,d (pM)

I) Induced both in vivo and in vitroe

BE689910

RIKEN cDNA 2310001H12 gene

2310001H12Rik

69504

2.7

2f, 168

48.02

3.9

1f

ND

BF226070

RIKEN cDNA 2600005C20 gene

2600005C20Rik

72462

2.1

4, 12, 18, 24f, 72, 168

2.18

2.3

4, 8, 12f, 24, 48

265.50

AI043124

RIKEN cDNA 2810003C17 gene

2810003C17Rik

108897

1.6

12f

37.02

1.7

4f

ND

AW537038

expressed sequence AA959742

AA959742

98238

7.2

4, 8, 12f, 18, 24, 72, 168

1.71

5.2

4, 8f, 12, 24, 48

67.79

W34507

abhydrolase domain containing 6

Abhd6

66082

1.7

4, 8f, 12, 18, 24, 72, 168

154.30

1.5

48f

138.50

NM_026410

cell division cycle associated 5

Cdca5

67849

8.8

4, 8, 12, 18, 24, 72f, 168

ND

1.7

4f

ND

BG063743

craniofacial development protein 1

Cfdp1

23837

3.6

4, 8, 12f, 18, 24, 72, 168

14.27

2.3

4f, 8, 12, 24, 48

42.64

AA073604

procollagen, type I, alpha 1

Col1a1

12842

1.7

18, 24, 72f

0.65

1.6

4, 8, 12f

17.25

NM_009992

cytochrome P450, family 1, subfamily a, polypeptide 1

Cyp1a1

13076

38.4

2, 4, 8, 12, 18, 24f, 72, 168

0.05

37.7

1, 2, 4, 8, 12, 24, 48f

14.06

BE457542

Dehydrogenase/reductase (SDR family) member 3

Dhrs3

20148

2.0

4, 8, 12f, 18, 72, 168

0.67

1.5

8f

2.43

AW552715

DnaJ (Hsp40) homolog, subfamily B, member 11

Dnajb11

67838

1.7

12, 18, 24f,168

3.95

1.6

8, 12f

9.85

AK015223

dermatan sulphate proteoglycan 3

Dspg3

13516

6.2

4, 8, 12, 18, 24f, 72, 168

0.13

8.4

2, 4, 8, 12, 24, 48f

16.34

NM_008655

growth arrest and DNA-damage-inducible 45 beta

Gadd45b

17873

4.6

2f, 4, 72

133.30

3.7

1f, 2

1440.00

W54349

glutathione S-transferase, alpha 4

Gsta4

14860

2.0

18, 24, 72f

0.48

1.7

8f, 12

56.38

BG067127

interferon regulatory factor 1

Irf1

16362

1.5

168f

ND

1.7

2f, 4

ND

AA015278

integrin beta 1 (fibronectin receptor beta)

Itgb1

16412

1.6

4, 18, 24, 168f

97.23

4.2

4, 8, 12, 24, 48f

72.92

AA041752

Jun proto-oncogene related gene d1

Jund1

16478

2.0

12f, 18, 24

0.99

2.1

4, 8, 12, 24, 48f

50.34

BF538945

lectin, mannose-binding, 1

Lman1

70361

1.9

12, 72, 168f

13.49

2.0

4f, 8, 24, 48

40.72

BG066626

lipin 2

Lpin2

64898

3.0

4, 12, 24f, 72

3.13

2.3

2, 4f, 8, 12, 24, 48

23.83

BI440950

leucine rich repeat containing 39

Lrrc39

109245

2.9

2f, 4

49.71

3.1

1f, 2

68.57

AW413953

mitochondrial ribosomal protein L37

Mrpl37

56280

8.3

2, 4, 8f, 12, 18, 24, 72, 168

8.77

2.7

2, 4f, 8, 12, 24, 48

49.59

BE623489

NAD(P)H dehydrogenase, quinone 1

Nqo1

18104

4.6

4, 8, 12f, 18, 24, 72, 168

1.00

5.2

4, 8f, 12, 24, 48

33.74

NM_026550

PAK1 interacting protein 1

Pak1ip1

68083

3.8

4, 8, 12, 18, 24, 72f, 168

0.26

2.2

4f, 8, 12, 24, 48

7.00

AA152754

prostaglandin-endoperoxide synthase 1

Ptgs1

19224

1.6

168f

1.11

2.3

4, 8f, 12, 24, 48

37.96

BG063583

solute carrier family 20, member 1

Slc20a1

20515

2.2

2, 4f, 8

ND

1.8

2f, 4

ND

AJ223958

solute carrier family 27 (fatty acid transporter), member 2

Slc27a2

26458

1.9

12f, 18, 24, 72, 168

2.88

2.1

8, 12f, 24, 48

17.42

BG066820

solute carrier family 6 (neurotransmitter transporter, taurine), member 6

Slc6a6

21366

1.8

4f, 12

2.48

1.7

48f

3.06

AI592773

suppression of tumorigenicity 5

St5

76954

1.6

8, 12f

28.85

1.7

4f, 8, 12

14.69

BG067168

TCDD-inducible poly(ADP-ribose) Polymerase

Tiparp

99929

10.3

2, 4f, 12, 18, 24, 72, 168

36.49

6.4

1, 2f, 4, 8, 12, 24, 48

18.03

BG065761

tumor necrosis factor, alpha-induced protein 2

Tnfaip2

21928

5.5

2, 4f, 12, 18, 72

36.41

6.3

2, 4f, 8, 12, 24, 48

41.15

AA067191

UDP-glucose dehydrogenase

Ugdh

22235

3.1

4, 8, 12 f, 18, 24, 72, 168

0.79

1.5

2, 4, 8, 12f, 48

4.33

NM_011709

whey acidic protein

Wap

22373

5.9

2, 4, 8, 12, 18, 24, 72, 168f

0.12

4.2

2, 4, 8, 12, 24, 48f

17.44

BG075778

Xanthine dehydrogenase

Xdh

22436

2.7

4, 8, 12f, 18, 24, 72, 168

1.24

2.6

4, 8, 12, 24, 48f

34.92

BG073881

zinc finger protein 36, C3H type-like 1

Zfp36l1

12192

2.2

2f

ND

1.7

1, 2f

2427.00

AA031146

zinc finger protein 672

Zfp672

319475

1.6

4f

3.09

1.5

2f

ND

II) Repressed both in vivo and in vitroe

BG146493

RIKEN cDNA 6330406L22 gene

6330406L22Rik

70719

-1.5

18f

0.51

-1.8

8, 12f

25.67

AA140059

DNA methyltransferase (cytosine-5) 1

Dnmt1

13433

-1.9

168f

ND

-1.6

8f, 12

ND

AI327022

ficolin A

Fcna

14133

-1.6

18, 24f

ND

-1.7

12, 24f

ND

AA288963

fibrinogen-like protein 1

Fgl1

234199

-1.9

24f

ND

-1.5

24f, 48

ND

BE626913

GTP binding protein 6 (putative)

Gtpbp6

107999

-3.4

24, 72f

ND

-1.7

24, 48f

116.40

AA275564

glycerol kinase

Gyk

14933

-1.5

12f

10.2

-1.6

24f

ND

BG070106

lipocalin 2

Lcn2

16819

-2.8

24f

ND

-1.5

24, 48f

ND

AW049427

leucine zipper domain protein

Lzf

66049

-1.6

24f

ND

-1.6

48f

78.29

AA016759

minichromosome maintenance deficient 6

Mcm6

17219

-1.6

18f

3.34

-1.6

8f

58.04

BF011268

mitochondrial methionyl-tRNA formyltransferase

Mtfmt

69606

-1.8

24, 72f, 168

ND

-1.6

24, 48f

ND

AA683699

RNA (guanine-7-) methyltransferase

Rnmt

67897

-2.0

12f

ND

-1.6

8f

ND

 

syntrophin, gamma 1

Sntg1

71096

-1.6

24f

15.27

-1.7

4f

66.61

AA199550

syntaxin 12

Stx12

100226

-1.5

18f

ND

-1.6

48f

ND

AA047942

thymidine kinase 1

Tk1

21877

-1.7

18f, 24, 72

0.34

-2.0

8, 12f

153.90

III) Induced in vivo and repressed in vitroe

AA122925

carbonic anhydrase 2

Car2

12349

2.4

12, 72, 168f

2.00

-1.8

24f, 48

55.96

AI327078

coactosin-like 1

Cotl1

72042

1.6

168f

ND

-1.7

24, 48f

25.19

NM_007935

enhancer of polycomb homolog 1

Epc1

13831

1.6

168f

1.16

-2.7

12, 24f

75.21

BC002008

fatty acid binding protein 5, epidermal

Fabp5

16592

3.9

8, 12f

2.43

-1.9

8, 12f, 24

54.14

NM_026320

growth arrest and DNA-damage- inducible, gamma interacting protein 1

Gadd45gip1

102060

1.8

168f

4.67

-1.5

8f

40.49

W11419

inhibitor of DNA binding 3

Id3

15903

1.8

168f

0.34

-1.5

24, 48f

88.83

AA009268

myelocytomatosis oncogene

Myc

17869

3.7

4, 12f, 168

5.59

-2.2

2f

148.40

NM_011033

poly A binding protein, cytoplasmic 2

Pabpc2

18459

7.0

2f

ND

-1.6

12f

ND

 

REST corepressor 1

Rcor1

217864

1.9

4, 8, 18, 72, 168

3.70

-1.6

24f

116.50

BE980584

secretory granule neuroendocrine protein 1, 7B2 protein

Sgne1

20394

3.3

168f

0.74

-1.5

48f

175.00

AA462951

transcription factor 4

Tcf4

21413

1.6

12f, 168

5.77

-1.5

24f

74.44

AA003942

tenascin C

Tnc

21923

1.6

168f

0.37

-1.8

24f, 48

59.34

IV) Repressed in vivo and induced in vitroe

W36712

B-cell translocation gene 2, anti- proliferative

Btg2

12227

-1.8

18f, 24

ND

1.5

4f

ND

AA174215

cathepsin L

Ctsl

13039

-1.6

24f, 72, 168

ND

1.6

8, 48f

ND

AA419858

cysteine rich protein 61

Cyr61

16007

-1.6

2f

0.07

1.6

8, 48f

ND

AW488956

polo-like kinase 3

Plk3

12795

-1.6

4f

ND

1.6

4, 48f

ND

BG068288

solute carrier organic anion transporter family, member 1b2

Slco1b2

28253

-1.7

8f, 12, 18, 24, 72, 168

ND

1.6

4f

1.18

NM_011470

small proline-rich protein 2D

Sprr2d

20758

-1.6

18f, 72

1.97

1.6

4f

ND

  1. aMaximum absolute fold change determined by microarray analysis
  2. bTime point where genes are differentially regulated with P1(t) > 0.9999 and |fold change| > 1.5
  3. cEC50 valued determined from microarray results
  4. dND = not determined from microarray results
  5. eClassification groups as defined in Figure 4B
  6. fTime point representing the maximum |fold change|
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