Supplementary Table 1a for Miller, Chang, Galecki, Al-Regaiey, Kopchick, and Bartke, "Gene Expression Patterns in Calorically Restricted Mice: Partial Overlap With Long-Lived Mutant Mice," Molecular Endocrinology, in press

Supplementary Table 1a (for web site posting): Genes Increased by CR Diet

GenBank

Description

p(t)

Mean in CR

Mean in AL

Ratio: CR/AL

M74425

5-hydroxytryptamine (serotonin) receptor 3A

0.0329

27

18

1.54

U22058

a disintegrin and metalloprotease domain 4

0.0188

36

24

1.55

Z31663

activin A receptor, type 1B

0.0311

33

20

1.62

L48015

activin A receptor, type II-like 1

0.0015

57

27

2.11

U05671

adenosine A1 receptor

0.0218

70

38

1.82

Y12738

adrenergic receptor, alpha 1b

0.0041

82

43

1.91

M84147

alcohol dehydrogenase 5

0.0274

204

83

2.46

J02980

alkaline phosphatase 2, liver

0.0016

40

16

2.43

S37484

angiotensin receptor 1a

0.0102

52

28

1.88

X64262

Apolipoprotein A-I

0.0567

19586

10559

1.85

D10056

apolipoprotein H

0.0200

42

24

1.78

AB015140

aryl-hydrocarbon receptor repressor

0.0096

3991

1898

2.10

L28836

ATP-binding cassette, sub-family D (ALD), member 3

0.0169

458

221

2.07

U88064

basonuclin

0.0100

73

37

1.98

D21207

benzodiazepine receptor, peripheral

0.0245

87

51

1.71

X71788

Burkitt lymphoma receptor 1

0.0232

47

24

1.95

L22167

cAMP responsive element binding protein 3

0.0064

61

32

1.92

M90364

catenin beta

0.0010

198

86

2.29

Z17804

catenin src

0.0431

44

27

1.61

X59047

CD 81 antigen

0.0000

198

63

3.15

M62542

CD19 antigen

0.0002

59

23

2.58

M63697

CD1d2 antigen

0.0008

52

25

2.06

M58661

CD24a antigen

0.0020

46

22

2.12

L23108

CD36 antigen

0.0002

371

87

4.26

U18372

CD37 antigen

0.0020

37

20

1.90

L11332

CD38 antigen

0.0133

47

24

1.99

S51806

CD44 antigen; LY-24

0.0272

40

23

1.76

D16432

Cd63 antigen

0.0001

199

52

3.84

J04170

CD72 antigen

0.0019

43

22

1.94

M12052

CD8 antigen, alpha chain

0.0000

84

26

3.25

D14883

CD82 antigen

0.0001

309

101

3.06

AF001041

CD83 antigen

0.0000

79

23

3.42

U58633

cell division cycle 2 homolog A (S. pombe)

0.0000

260

61

4.28

L12693

cellular nucleic acid binding protein

0.0024

95

34

2.75

D89628

c-fos induced growth factor

0.0471

117

72

1.63

Y12879

chemokine (C-C) receptor 9

0.0056

59

24

2.50

J04192

cholinergic receptor, muscarinic 1, CNS

0.0136

52

30

1.73

D16263

chondroitin sulfate proteoglycan 2

0.0367

35

22

1.61

Y15128

chondroitin sulfate proteoglycan 6

0.0005

60

27

2.18

L10410

chromodomain helicase DNA binding protein 1

0.0251

43

25

1.73

AF000998

circadian locomoter output cycles kaput

0.0217

90

54

1.68

L03529

coagulation factor II (thrombin) receptor

0.0389

45

28

1.64

Z48043

coagulation factor II (thrombin) receptor-like 1

0.0010

47

23

2.05

M26071

coagulation factor III

0.0054

40

21

1.89

U52925

coagulation factor V

0.0070

162

63

2.58

X05010

colony stimulating factor 1 (macrophage)

0.0082

356

174

2.04

X81365

contactin 2

0.0003

151

75

2.00

X70533

corticosteroid binding globulin

0.0000

1223

291

4.21

L01640

cyclin-dependent kinase 4

0.0001

91

40

2.27

S82819

cyclin-dependent kinase 5, regulatory subunit (p35)

0.0020

130

65

1.98

J03549

cytochrome P450, 2a4

0.0012

4310

1412

3.05

U62295

cytochrome P450, 2j6

0.0200

59

29

2.02

AJ000328

desmoglein 2

0.0003

90

38

2.35

X55674

dopamine receptor 2

0.0143

169

74

2.29

AF037366

ectonucleoside triphosphate diphosphohydrolase 1

0.0271

27

16

1.67

AA271520

ectonucleoside triphosphate diphosphohydrolase 3

0.0001

90

30

3.04

J02700

ectonucleotide pyrophosphatase/phosphodiesterase 1

0.0079

60

34

1.76

U60453

enhancer of zeste homolog 1 (Drosophila)

0.0274

28

18

1.62

M68513

Eph receptor A3

0.0126

52

30

1.73

L25890

Eph receptor B2

0.0097

142

65

2.18

AF030454

epithelial V-like antigen

0.0005

64

31

2.07

U81451

estrogen receptor beta

0.0045

77

39

2.01

X79233

Ewing sarcoma homolog

0.0002

285

107

2.67

M83649

Fas antigen

0.0000

241

90

2.67

D37874

Fc receptor, IgG, alpha chain transporter

0.0009

214

91

2.35

M16367

Fc receptor, IgG, low affinity Iib

0.0099

119

53

2.23

U67610

fibroblast growth factor 1

0.0229

94

52

1.79

X51893

fibroblast growth factor receptor 1

0.0219

31

19

1.62

M86441

fibroblast growth factor receptor 2

0.0010

63

27

2.31

X17068

FK506 binding protein 4 (59 kDa)

0.0007

122

46

2.69

U87147

flavin containing monooxygenase 3

0.0421

147

42

3.48

L07296

FMS-like tyrosine kinase 4

0.0005

73

27

2.65

M74515

GA repeat binding protein, alpha

0.0000

150

44

3.41

X15763

GATA-binding protein 1

0.0151

45

25

1.79

S82462

GATA-binding protein 6

0.0153

40

25

1.63

AF012811

glial cell line derived neurotrophic factor family receptor alpha 1

0.0000

138

38

3.62

L38613

glucagon receptor

0.0000

282

89

3.18

M55413

group specific component

0.0023

2951

1910

1.54

U58972

growth factor independent 1

0.0328

35

23

1.51

X61753

heat shock factor 1

0.0014

61

27

2.29

X53476

high mobility group protein 14

0.0000

104

33

3.18

Z46757

high mobility group protein 2

0.0139

35

20

1.73

J04179

high mobility group protein I

0.0038

111

44

2.55

U94989

histocompatibility-2 complex class 1-like sequence

0.0129

50

32

1.57

M31885

inhibitor of DNA binding 1

0.0001

62

27

2.35

J05149

insulin receptor

0.0003

62

23

2.70

X81580

insulin-like growth factor binding protein 2

0.0132

1581

727

2.17

X81582

insulin-like growth factor binding protein 4

0.0091

1803

1015

1.78

AF041409

integrin alpha 8 (ITA8)

0.0040

67

36

1.86

X14951

integrin beta 2 (Cd18)

0.0004

61

25

2.38

AF043256

integrin beta 5

0.0003

44

20

2.21

L20232

integrin binding sialoprotein

0.0481

74

45

1.66

U51992

interferon dependent positive acting transcription factor 3 gamma

0.0007

82

38

2.16

L12120

interleukin 10 receptor, alpha

0.0029

138

53

2.59

U53696

interleukin 10 receptor, beta

0.0157

95

44

2.19

X74953

interleukin 11 receptor, alpha chain 1

0.0000

85

31

2.77

U22339

interleukin 15 receptor, alpha chain

0.0203

28

16

1.74

X53802

interleukin 6 receptor, alpha

0.0000

139

35

4.00

M29697

interleukin 7 receptor

0.0100

45

24

1.86

M84746

interleukin 9 receptor

0.0165

61

33

1.84

U35730

Jerky

0.0463

42

24

1.77

X70842

kinase insert domain protein receptor

0.0000

127

40

3.17

Y00864

kit oncogene

0.0065

51

26

1.99

X51905

lactate dehydrogenase 2, B chain

0.0207

56

30

1.87

U59865

laminin, alpha 4

0.0001

82

34

2.38

AF004874

latent transforming growth factor beta binding protein 2

0.0394

71

42

1.70

M57470

lectin, galactose binding, soluble 1

0.0005

103

44

2.35

X14607

lipocalin 2

0.0000

41

15

2.71

Y00082

lung carcinoma myc-related oncogene 1 (L-myc1; mycL1)

0.0000

74

20

3.70

X57687

lymphoblastomic leukemia

0.0399

26

17

1.56

J04634

lymphocyte antigen 64

0.0127

49

26

1.84

AB007599

lymphocyte antigen 86

0.0035

36

18

1.94

M84412

lymphocyte antigen 9

0.0077

40

20

2.01

Z23048

macrophage migration inhibitory factor

0.0104

746

352

2.12

X74736

macrophage stimulating 1 receptor

0.0176

52

27

1.95

D11441

mannose binding lectin, liver (A)

0.0003

249

43

5.78

U50734

maternal inhibition of differentiation

0.0015

57

29

1.96

U32395

Max dimerization protein 4

0.0000

170

73

2.32

U24674

Max interacting protein 1

0.0000

168

67

2.51

S63758

metallothionein-I activator

0.0064

50

25

1.99

S74908

Mm3 muscarinic acetylcholine receptor (MACHR)

0.0003

64

28

2.30

L04649

MYC-associated zinc finger protein

0.0143

91

53

1.71

AF010135

myeloid/lymphoid or mixed lineage-leukemia translocation to 10 homolog

0.0001

143

60

2.37

L31932

Natriuretic peptide receptor 1

0.0386

35

22

1.60

S40532

nescient helix loop helix 2

0.0014

38

20

1.93

X03919

Neuroblastoma myc-related oncogene 1

0.0004

53

24

2.25

X76653

nuclear receptor subfamily 2, group F, member 2

0.0055

96

46

2.08

X55315

nuclear transcription factor-Y alpha

0.0013

105

43

2.45

U28772

olfactory receptor 10

0.0304

64

38

1.70

AF106007

olfactory receptor 41

0.0269

57

31

1.84

S67043

Oligodendrocyte myelin glycoprotein

0.0007

53

24

2.21

J03398

P glycoprotein 2

0.0084

262

163

1.61

Y14493

paired mesoderm homeobox 2b

0.0334

47

28

1.66

X78936

Parathyroid hormone receptor

0.0000

104

40

2.63

X83601

pentaxin related gene

0.0316

43

28

1.55

AF009605

Phosphoenolpyruvate carboxykinase 1, cytosolic

0.0718

1116

565

1.98

X04367

platelet derived growth factor receptor, beta polypeptide

0.0337

48

27

1.76

D50872

platelet-activating factor receptor

0.0083

38

20

1.88

U08185

PR domain containing 1, with ZNF domain

0.0002

38

18

2.07

X12905

Properdin factor, complement

0.0140

98

57

1.72

D10204

Prostaglandin E receptor 3 (subtype EP3)

0.0080

73

36

2.00

U43508

RAR-related orphan receptor gamma

0.0000

260

41

6.37

M60909

retinoic acid receptor, alpha

0.0448

109

64

1.71

M74527

retinol binding protein 4, plasma

0.0007

9859

5081

1.94

X70067

Ribonucleic acid binding protein S1

0.0055

78

35

2.23

U58280

RNA polymerase 1-2 (128 kDa subunit)

0.0170

23

14

1.60

D83999

RNA polymerase II 3

0.0028

56

28

2.01

M96760

rod outer segment membrane protein 1

0.0261

43

26

1.67

Y17793

Roundabout homolog 1 (Drosophila)

0.0331

75

43

1.75

AJ223782

septin 7

0.0106

42

21

2.03

AJ011413

serum albumin variant

0.0406

52395

13463

3.89

X03479

serum amyloid A 3

0.0169

51

28

1.84

M23552

serum amyloid P-component

0.0229

148

40

3.68

U34307

Sfpi1/PU.1 interaction partner

0.0191

43

24

1.77

X17018

Sialophorin

0.0097

63

32

1.98

L00993

Sjogren syndrome antigen B

0.0269

47

28

1.67

M23384

solute carrier family 2 (facilitated glucose transporter), member 1

0.0110

150

95

1.58

AB015800

solute carrier family 22 (organic cation transporter), member 5

0.0364

54

33

1.63

M81831

Somatostatin receptor 1

0.0284

52

28

1.85

U27014

sorbitol dehydrogenase 1

0.0608

2246

1017

2.21

U66141

SRY-box containing gene 10

0.0406

42

27

1.56

X98369

SRY-box containing gene 15

0.0371

35

22

1.58

L35032

SRY-box containing gene 18

0.0021

97

45

2.16

X65657

SRY-box containing gene 5

0.0057

57

27

2.11

D89571

syndecan 4

0.0028

100

47

2.15

X93357

synovial sarcoma, translocated to X chromosome

0.0000

166

64

2.59

X62933

Tachykinin receptor 2

0.0097

70

36

1.96

D50563

TEA domain family member 2

0.0124

24

17

1.48

D87964

TEA domain family member 3

0.0009

69

32

2.18

Z47088

Transcription elongation factor B (SIII), polypeptide 1

0.0135

42

27

1.59

X74216

Transcription factor AP-2, alpha

0.0014

96

39

2.49

X17500

Transcription factor E2a

0.0016

77

39

1.96

AF079095

Transcription factor EB

0.0000

285

88

3.25

S78219

Transcriptional intermediary factor 1, alpha

0.0000

171

71

2.40

X99644

Transcriptional intermediary factor 1, beta

0.0004

84

38

2.21

U12763

tumor necrosis factor (ligand) superfamily, member 4

0.0000

240

74

3.26

L26349

tumor necrosis factor receptor superfamily, member 1a

0.0000

177

56

3.14

M59378

tumor necrosis factor receptor superfamily, member 1b

0.0393

33

21

1.61

M36387

tumor rejection antigen P1A

0.0049

64

29

2.24

M76124

tumor-associated calcium signal transducer 1

0.0360

29

19

1.53

U01662

upstream transcription factor 2

0.0000

402

136

2.96

L33417

very low density lipoprotein receptor

0.0021

84

35

2.39

U30838

voltage-dependent anion channel 2

0.0070

87

38

2.27

D30743

wee 1 homolog (S. pombe)

0.0185

37

25

1.47

X85802

zinc finger protein 162

0.0179

155

96

1.61

Note for Supplementary Table 1a and 1b: The mean values are given in "background-subtracted pixel volumes." As explained in the text, each raw value was adjusted by (a) subtraction of local background level computed from an annulus adjacent to the scanned spot image; (b) logarithmic transformation; (c) adjustment by linear regression against a standard vector consisting of median levels across the set of 28 32 samples; (d) calculation of mean values; and (e) antilog transformation to express as an equivalent to the original pixel volumes. The raw data values were, on average, 15% above background for the 206 genes with a mean transformed expression level of less than 60 pixel volume units, 32% above background for the 62 genes with a mean transformed expression level between 60 and 100 units, and 83% above background for the 84 genes with a mean transformed expression level above 100 units.