Supporting information for Desai et al. (2002) Proc. Natl. Acad. Sci. USA 99 (10), 6967–6972. (10.1073/pnas.102172399)
Table 2.
Genes differentially expressed between mouse mammary tumors and normal mouse mammary gland
| C3(1)- T-ag | Wap- T-ag | Myc | Neu | Ras | PyMT |
Cell cycle | ||||||
Cyclin B | + | + | + | + | + |
|
Cyclin D1 | + | = | = | + | + | + |
Cyclin E | + | ++ | ++ |
| + | + |
Proliferating cell nuclear antigen | + | + | + | = | = | = |
Cyclin-dependent kinase-like 2 (CDC2-related kinase) | + | + | + | + | ++ | ++ |
CDC28 protein kinase 1 | ++ | ++ | ++ | + | + | + |
cdc 25c | + | + | + | = | = | = |
Cell division cycle 2A | ++ | + | ++ | = | ++ | + |
Cyclin-dependent kinase inhibitor 2C | – | = | – | – | – | – |
Adhesion | ||||||
Cell adhesion kinase | ++ | + | + | + | + | + |
Junction cell adhesion molecule | + | + |
| + | + | + |
Glycosylation dependent CAM1 | + | + | + | + | + |
|
CEA-related cell adhesion molecule 1 | + | + | + | + | ++ | ++ |
ICAM-3 | + | + | + | = | + | = |
cadherin 1 | + | + | + | + | ++ | + |
Transcription factors | ||||||
TF Interferon regulatory factor 2 | + | = | + | + | + | + |
TF BTF3b | – | – | – | – | – | – |
TF TF-1 UBF | – | – | – | – | – | – |
TF TFIIH 62 kD subunit | – | – | = | – | – | – |
TF Transcription factor E2a | = | + | + | + | + | + |
TF Zinc finger protein 207 | + | + | + | + | + |
|
TF Zinc finger protein 148 | + | + | + | + | + | + |
TF ZnFinger-PLZF | + | + | + | + | + | + |
TF Zfp228 (Znf228) | + | + | + | + | + | + |
TF ZnFing.MHC | + | + | + | + | + | + |
TF Zinc finger protein 81 | = | = | + | + | + | + |
TF zinc finger homeobox 1a | – | = | = | – | – | – |
Iroquois related homeobox 3 (Drosophila) |
| + | + | + | + | + |
TF six1 | – | = | = | = | – | – |
TF homeotic 7 | – | = | = | = | – | – |
TF HOX5.4 | – | – | = | – | – | – |
TF ELF-1 | = | + | + | + | + | + |
TF HZF1 | – | – | = | – | – | – |
TF NF-ATc | – | – | = | – | – | – |
TF fra-1 | + | + | + | + | + | + |
STAT- 3 | + | + | = | + | + | + |
STAT-6 |
| + | + | ++ | + | + |
Trans-acting transcription factor 1 | + | + | + | – | + | + |
Upstream transcription factor 2 | + | ++ | + | + | = | + |
Activating transcription factor 2 | + | + | + | + | + |
|
TGFB inducible early growth response | + | + |
| ++ | + | + |
p100 co-activator | + | ++ | ++ | + | + | + |
Ets variant gene 6 (TEL oncogene) | + | ++ | + | + | + |
|
Related to Drosophila groucho gene | – | + | + | ++ | = | = |
jun D1 | – | = | – | – | – | – |
Jun oncogene | – – | – | – | – | – | – |
Myelocytomatosis oncogene | = | = | ++ | = | + | = |
Max protein |
| + | + | + | + |
|
Max binding protein | + | + | = | + | + |
|
TF POU domain, class 2 | = | = | + | + | + | + |
TF AP-2, gamma | + | = | = | + | + | + |
immediate early response 3 | ++ | + | = | ++ | ++ | ++ |
TF E2F3 | – | = | = | = | – | – |
E2F-like transcriptional repressor protein | – | – | = | – | – | – |
Retinoblastoma-like 1 (p107) | + | – | – | – | = | – |
Frizzled homolog 8 (Drosophila) | + | + | + | = | + | = |
VEGF-related factor mvrf186 precursor | – | – | = | – | – | – |
Steroid receptor coactivator-1 (mSRC-1) | + | + | + | + | + | + |
TBX1 protein | + | + | = | + | = | + |
forkhead box M1 | + | + | + | = | + | = |
forkhead box O1 | + | + | + | + | + | + |
bromodomain-containing 2 | + | + | + | + | ++ | + |
requiem | + | + | + | + | + | + |
TG interacting factor | + | + | + | + | + | + |
jumonji | – | – | – | – | – | – |
homer, neuronal immediate early gene, 2 | = | + | + | +++ | + | + |
thymoma viral proto-oncogene 2 | + | ++ | + | + | = | = |
butyrate response factor 1 | + | + |
| + | + | + |
SRY-box containing gene 15 | – | – | – | – | – | = |
nuclear factor I/X | = | + | + | + | + | + |
nuclear factor I/B | + | + | + | + | + | + |
jagged 2 | – | = | – | – | – | – |
Hairy/enhancer-of-split related with YRPW motif 1 |
| + | = | +++ | + | ++ |
manic fringe homolog (Drosophila) | ++ | + | + | + | + | + |
DNA binding/repair/metabolism | ||||||
cellular nucleic acid binding protein | + | + | + | + | + | + |
four and a half LIM domains 2 | + | + | + |
| = |
|
four and a half LIM domains 1 | – | – | – | – | – | – |
origin recognition complex subunit 6 | + | + | + | = | = | = |
Mcmd 7 | ++ | + |
| = | = | = |
Mcmd 6 | ++ | ++ | + | = | = | = |
Mcmd 4 | ++ | ++ | + | = | = | = |
replication protein A2 | + | – | + | + | + | + |
mutS homolog 2 (E. coli) | ++ | + | + | + | + | + |
repair Ku86 | – | – | = | = | – | – |
Xrcc1 | + | + | + | + | + | + |
histone deacetylase 1 | ++ | + | + | + | = | = |
thymidine kinase 1 | = | + | + | = | + | = |
thymidine kinase 2, mitochondrial | + | + | + | + | + | + |
3'-phosphoadenosine 5'-phosphosulfate synthase 1 | + | + | + | + | + | = |
histone H1 | + | + | + | + | + | + |
H2A histone family, member Z | ++ | + | + | = | = | = |
H3 histone, family 3B | + | ++ | = | + | + | + |
centromere autoantigen A |
| + | + | + | = | = |
ecotropic viral integration site 5 | ++ | + | + | + | = | + |
LIM only 4 | = | = | = | + | ++ | + |
Cell metabolism | ||||||
UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 1 | + | + | + | + | + | + |
UDP-N-acetyl-alpha-D-galactosamine:(N-acetylneuraminyl)-galactosylglucosylceramide-beta-1, 4-N-acetylgalactosaminyltransferase | + | + | + | + | + | + |
glycoprotein galactosyltransferase alpha 1, 3 | + | + | + | = | + | = |
lactotransferrin | + | ++ | +++ | ++ | = | ++ |
ribophorin | = | + | + | + | + | = |
hexokinase 1 | + | + | + | + | + | + |
aldolase 1, A | – | – | – | = | – | = |
aldolase 3, C | = | = | = | +++ | = | + |
enolase 3, beta muscle | – | – | – | – | – | – |
glyceraldehyde-3-phosphate dehydrogenase | + | ++ | + | + | + | + |
pyruvate dehydrogenase E1alpha subunit | + | + | + | + | + | = |
pyruvate decarboxylase | – | – | – | – | – | – |
phosphofructokinase-1 A isozyme | – | – | – | – | – | – |
fructose bisphosphatase 2 | + | + | + | + | + | + |
lactate dehydrogenase 1, A chain | ++ | ++ | ++ | ++ | ++ | ++ |
malic enzyme, supernatant | – | – | – | – | – | – |
carbonic anhydrase 6 | = |
| + | + | +++ | +++ |
esterase 1 | – | – | – | – | – | – |
acid beta glucosidase | + | + | + | + | + | + |
alkaline phosphatase 2, liver | + | + | + | + | + | + |
asparagine synthetase |
| + | ++ | = | + | + |
muscle glycogen phosphorylase | – – | – | – | – – | – | – – |
arachidonate 12-lipoxygenase, 12R type | + | + | = | ++ | + | = |
hydroxysteroid 11-beta dehydrogenase 1 | – | – | – | – | – | – |
acetyl-Coenzyme A synthetase 1 (AMP forming) | – | – | – | – | – | – |
glutamate dehydrogenase | + | + | + | + | = | = |
glutamine synthetase | – | – | – | – | – | – |
fatty acid synthase | – – | – | – | – | – | – |
aldehyde dehydrogenase family 1, subfamily A4 | – | – | – | + | = | – |
hydroxyacid oxidase 1, liver | – | – | = | – | – | – |
gamma-glutamyl hydrolase |
| = |
| ++ | +++ | = |
epoxide hydrolase 2, cytoplasmic | – | – | = | – | – | – |
phosphomannomutase 1 | + | ++ |
| + | + | = |
argininosuccinate synthetase 1 | + | + | + | + | + | + |
selenophosphate synthetase 2 | + | + | + | + | + | + |
mannosidase 2, alpha 1 |
| + |
| + | + | + |
peptidylprolyl isomerase A | + | + | + | + | + | + |
glycerol phosphate dehydrogenase 1, cytoplasmic adult | – | – | = | – | – | – |
ART3 gene | – | – | – | – | – | – |
orosomucoid 1 | – | – | – | – | – | – |
coactivator-associated arginine methyltransferase 1 | + | + | + | + | + | + |
peroxisome biogenesis factor 16 | = | = | – | – | = | – |
diphosphoinositol polyphosphate phosphohydrolase | = | = | = | + | + | + |
creatine kinase, muscle | – – | – – | – – | – – | – – | – |
deiodinase, iodothyronine, type II | – | – | – | – | – | – |
lipoprotein lipase | – – | – – | – – | – – | – – | – |
branched chain ketoacid dehydrogenase E1, beta | – | – | – |
| – | – |
cytochrome P450, 2d9 | – | – | – | = | – | = |
3-hydroxy-3-methylglutaryl-Coenzyme A synthase 2 | = | = | – | – | – | – |
Peptidylglycine alpha-amidating monooxygenase | – | = | – | – | = | = |
NADH ubiquinone oxidoreductase subunit MWFE | – | – | – | – | – | – |
Sialyltransferase 10 (alpha-2,3-sialyltransferase VI) | – | = | – | – | – | – |
carbonic anhydrase 3 | – – | – – | – | – – | – – | – |
glutathione transferase zeta 1 (maleylacetoacetate isomerase) | – – | – | – | – | – | – |
Peroxisomal acyl-CoA oxidase (muspaox) | = | + | + | + | + | = |
UDP-glucuronosyltransferase 1 family | – | = | = | = | – | – |
lysyl oxidase-like | – | = | = | = | – | – |
acetyl-Coenzyme A synthetase 1 (AMP forming) | – | – | – | – | – | – |
succinate-CoA ligase, GDP-forming, alpha subunit | – | = | = | – | – | – |
lysosomal acid lipase 1 | = | = | + | + | + | + |
dodecenoyl-Coenzyme A delta isomerase (3,2 trans-enoyl-Coenyme A isomerase) | – | = | – | – | – | – |
amylase 1, salivary | – | – | – – | – – | – – | – |
hydroxylacyl-Coenzyme A dehydrogenase | – | – | – | – | – | – |
Cytoskeletal/extracellular matrix proteins | ||||||
Collagen | + | + | + | + | + | + |
procollagen, type XI, alpha 1 |
| + |
| + | = | + |
procollagen, type III, alpha 1 | – | – | – | – | – – | – |
procollagen, type I, alpha 2 | – | = | = | – | = | – |
tubulin alpha 4 | ++ | ++ | ++ | + | + | + |
tubulin, beta 5 | ++ | ++ | ++ | + | + | + |
Reticulocalbin | + | + | + | + | + | = |
plakophilin 3 | + | + | + | + | + | + |
synaptogyrin 2 | + | + | + | + | + | + |
myosin heavy chain, cardiac muscle, adult |
| + | + | + | + | + |
myosin, heavy chain, skeletal | – | – | – | – | – | – |
myosin light chain 2 | – – | – | – – | – | – | – – |
Actin alpha 1 | = | – | – | – | = | – |
actin, gamma, cytoplasmic | + | + | + | + | + | = |
capping protein alpha 1 | ++ | ++ | + | + | + | = |
actin-related protein 1 homolog A | + | + | + | + | = | + |
actinin alpha 3 | – | = | = | = | – | – |
claudin 3 | + | + | + | ++ | ++ | + |
claudin 7 | = | + | = | + | + | + |
Keratin 29 | + | + | + | = | + | = |
Keratin complex 2 basic gene 1 | = | = | = | – | = | – |
keratin complex 2, basic, gene 4 | + | + | + | + | + | + |
troponin C, fast skeletal | – – | – | – | – | – – | – – |
cofilin 1, non-muscle | + | + | + | + | + | = |
cofilin 2, muscle | – | – | – | – | – | – |
adducin 3 (gamma) | ++ | = | + | + | = | = |
ferritin heavy chain | – | – | = | – | – | – |
caveolin, caveolae protein, 22 kDa | – | – | – – | – | – | – – |
coatomer protein complex, subunit gamma 1 | + | + | + | + | + | + |
pantophysin | + | + | + | + | + | = |
lumican | – – | – | – | – – | – | – – |
kinesin family member 5B | + | + | + | + | + | + |
kinesin heavy chain member 2 | + | + | = | + | = | + |
es64 protein | + | ++ | + | + | + | + |
torsin family 1, member A | + | + | + | + | + | = |
Synaptobrevin | – | = | = | – | – | – |
Synaptophysin | – | – | = | – | – | – |
synaptonemal complex protein 3 | – | – |
| – | – | – |
syndecan 2 | + | + | + | + | + | + |
dynein, axon, heavy chain 11 | + | + | + | + | + | = |
crystallin, alpha 2 | – | – | – | – | – | – |
myotilin | – | – | – | – | – | – |
Stretch response protein 553 (sr553 gene) | – | – | – | – | – | – |
kelch-like ECH-associated protein 1 | + | + | + | + | + | + |
formin binding protein 3 | + | + | + | + | + | + |
formin binding protein 4 | + | + | + | = | + | + |
Formin binding protein 21 | + | = | = | ++ | + | + |
Myogenin | – | – | = | – | – | = |
tropomodulin 4 | – | – | – | – | – | – |
villin 2 | + | = | + | + | ++ | ++ |
Biglycan | = | = | = | = | – | – |
Fibrinogen-like | – | = | = | – | – | – |
Laminin B1 subunit 1 | = | = | + | + | + | + |
Prohibitin | – | = | – | – | – | – |
Adaptin | + | + | + | = | + | = |
peripheral myelin protein, 22 kDa | – | – | = | – | = | – |
myelin basic protein | = | + | ++ | +++ | ++ | + |
Signal transduction | ||||||
kinase rac-B | + | + | + | + | + | + |
neuroblastoma ras oncogene | + | + | + | + | = | + |
FK506 binding protein 4 (59 kDa) |
| = | + | + | = | + |
osteoblast specific factor 2 (fasciclin I-like) | – | – | – | – | – | – |
GTP beta-2, related sequence 1 | + | + | + | + | + | + |
GTP-binding protein 2 | + | ++ | + | + | + | + |
GTP, alpha stimulating | = | + | + | + | + | + |
T-cell specific GTPase | – | – | – | – | – | – |
Rac GTPase-activating protein 1 | ++ | ++ | + | + | + | + |
phospholipase A2 group VII | ++ | ++ | + | = | + | = |
phospholipase D3 |
| + | + | + | + | + |
Phosphodiesterase 2 | – | – | – | = | – | – |
phosphodiesterase 9A | + | + |
| + | + | + |
sphingomyelin phosphodiesterase 1 | = | = | + | + | + | + |
cGMP-phospdiestersae | = | = | – | – | – | – |
Rab6, kinesin-like | ++ | + | + | + | + | + |
Shc SH2-domain binding protein 1 | ++ | + | + | + | = | = |
SH3 domain protein 5 | – | – | – | – | – | – |
cytokine inducible SH2-containing protein 2 |
| + |
| +++ | ++ | + |
cell division cycle 42 homolog (S. cerevisiae) | + | + | + | + | + | + |
Protein kinase, cAMP dependent regulatory, type I beta | + | + |
| + | + | + |
RAB7, member RAS oncogene family | + | ++ | + | + | + | + |
MARCS | – | – | – | – | – | – |
SKAP55 homologue | + | + | = | + | + | + |
NCK-associated protein 1 | + | + | = | + | + | = |
faciogenital dysplasia homolog | + | + | + | + | = | = |
C-src | – | – | – | – | – | = |
Nck | + | + | + | = | + | = |
Lymphocyte protein tyrosine kinase | ++ | + | + | + | + | + |
Protein tyrosine kinase 6 | = | = | = | = | – |
|
C-mer tyrosine kinase receptor | – – | – | – | – | – | – |
Met kinase | – – | – | – | – – | – | – – |
Kinase blk | – | = | = | = | – | – |
Kinase syk | – – | – | – | – | – | – |
Kinase PITALRE | – | – | – | – | – – | – |
Kinase LERK-2 | – | = | – | – | – | – |
Casein Kinase Kd | – | = | – | = | – | – |
protein phosphatase 2, regulatory subunit B (B56) | + | + | + | + | + | + |
Protein phosphatase 1B, beta | – | = | – | – | – | – |
protein tyrosine phosphatase, receptor-type, F |
| = | + | + | + | + |
protein phosphatase 2A, alpha | + | ++ | + | + | + | + |
protein tyrosine phosphatase, receptor type, K | ++ | + | + | + | + | = |
protein phosphatase 1, (inhibitor) subunit 1A | – | = | – | – | – | – |
Transmembrane protein with EGF-like and two follistatin-like domains 1 | – | = | – | – | – | – |
modification PSD95/SAP90like | – | – | = | – | – – | = |
Serine/threonine protein kinase | – | = | – | – | – | – |
serine/threonine kinase 19 | + | + | + | + | + | + |
MAD homolog 3 (Drosophila) |
| – | – | – | = | – |
DNA activated protein kinase, catalytic subunit | + | + | + | = | + | + |
hemopoietic cell kinase | – | – | = | – | – | – |
casein kinase I-alpha | + | + | + | + | + | + |
casein kinase II, alpha 1, related sequence 4 | + | + | + | + | + | + |
Structural RNA/RNA metabolism | ||||||
Ribosomal s17 protein | + | + | + | ++ | = | + |
ribosomal protein L3 | + | + | ++ | + | + | + |
ribosomal protein L8 | + | + | ++ | + | + | + |
DEAD/H box RNA helicase A | + | + | + | + | + | + |
cleavage and polyadenylation specific factor 4, 30kDa | + | + | + | + | + | + |
staufen homolog 1 (Drosophila) | + | + | + | + | + | + |
heterogeneous nuclear ribonucleoprotein D-like | + | ++ | ++ | + | + | + |
heterogeneous nuclear ribonucleoprotein L | + | + | + | = | + | + |
heterogeneous nuclear ribonucleoprotein U | + | + | + | + | + | = |
heterogeneous nuclear ribonucleoprotein A/B | – | – | – | – | – | – |
RNA binding motif protein, X chromosome retrogene | + | + | + | + | + | = |
pleiotropic regulator 1, PRL1 homolog | – | – | – | – | – | – |
Hormone/growth factors/receptors/effectors | ||||||
ryanodine receptor 1, skeletal muscle | – | – | = | – | – | – |
PPAR-gamma | – | – | – | – | – | – |
placental growth factor | + | + | = | = | + | + |
Receptor flt1/flt4 | + | + | + | + | + | + |
fibroblast growth factor receptor 1 | + | + | = | + | + | + |
polymeric immunoglobulin receptor |
| + | + | + | + | = |
interferon gamma receptor | – | – | = | – | – | – |
nuclear receptor subfamily 4A, member 1 | = | + | + | + | ++ | + |
colony stimulating factor 2 receptor, alpha, l | + | + | = | + | + | = |
Chemokine orphan receptor 1 | – | – | – | – | – | – |
TNF receptor superfamily member 1a |
| + | + | + | = | + |
R Plat.act.R | – | – | – | – | – | – |
Laminin R-1 | = | + | + | + | + | + |
Folate receptor alpha precursor | – | = | + | ++ | ++ | + |
Insulin-like growth factor 2 | – | – | – – | – | – | = |
Pleiotrophin | – | = | – | – | = | – |
preproenkephalin 2 | ++ | + | + | + | = | = |
Melanin | – | = | = | – | – | – |
Small inducible cytokine A2 |
| = | – | – | = | = |
Small inducible cytokine A3 | – | = | – | – | = | = |
small inducible cytokine A9 | – | = | = | – | – | – |
small inducible cytokine A5 | = | + | + | = | + | + |
Midkine | = | = | – | = | – | = |
Follitropin-B | = | – | – | = | – | – |
Apoptosis | ||||||
Bak | + | + | + | + | + | + |
Cell death-inducing DNA fragmentation factor, alpha subunit-like effector A | – | – | – | – | – | – |
Caspase 1 | + | + | = | + | + | = |
caspase 2 | + | + | = | + | + | = |
Programmed cell death 4 | + | ++ | + | ++ | + | + |
Bcl-associated death promoter | + | + | + | = | + | = |
Antigens | ||||||
CD24a antigen |
| + | ++ | + | + | + |
CD9 antigen | + | + | + | ++ | ++ | + |
CD164 antigen | + | + | + | + | + | = |
TM9SF3 (Tm9sf3) | ++ | +++ | ++ | ++ | + | + |
CD14 antigen | + | ++ | + | + | + | + |
CD36 antigen | – – | – – | – – | – | – | – – |
antigen identified by monoclonal antibodies 4F2 | + | = | + | + | + | + |
Membrane proteins/transporters | ||||||
SEC61, alpha subunit (S. cerevisiae) | + | + | + | + | + | + |
surfeit gene 4 |
| + | + | + | + | + |
ATPase, Ca++ transporting, cardiac muscle 1 | – | – | – | – | – | – |
translocator of inner mitochondrial membrane | – | = | – | – | – | – |
sodium channel, voltage-gated, type I, beta | – | = | = | = | = | – |
chloride intracellular channel 4 (mitochondrial) | – – | – | – | – | – | – |
integral membrane protein 2 B | + | + | ++ | + | + | + |
integral membrane protein 2 | – | – | – | – | – | – |
lipocalin 2 | ++ | +++ | +++ | +++ | +++ | +++ |
solute carrier family 12, member 2 | = | = | = | ++ | ++ | + |
solute carrier family 25, member 5 | + | + | + | + | + | = |
solute carrier family 29 member 1 | + | + | + | ++ | ++ | + |
solute carrier family 34 | – | – | – | – | – | – |
transcobalamin 2 | = | + | + | +++ | ++ | ++ |
secretory carrier membrane protein 4 |
| + | + | + | + | + |
secretory carrier membrane protein 3 | + | ++ | + | + | + | + |
KCNN4 | = | + | + | +++ | ++ | ++ |
membrane component, surface marker 1 | ++ | ++ | + | + | = | + |
nidogen 1 | – | – | – | – | – | – |
aquaporin 1 | + | + | + | + | + | + |
mitochondrial capsule selenoprotein | + | + | + | + | + | = |
uncoupling protein 2, mitochondrial | = | + | + | + | + | + |
ATPase-like vacuolar proton channel | + | + | = | + | + | + |
ATP-binding cassette, (GCN20), member 3 | + | + | + | + | = | + |
ring finger protein 11 | + | + | + | ++ | + | + |
Protein translation/metabolism | ||||||
EIF4E-like protein | + | + | + | + | + | + |
EIF 2 alpha kinase 1 | + | + | + | + | = | = |
EIF 1 alpha 1 | ++ | + | ++ | ++ | + | + |
EIF3 p66 | + | + | + | + | + | + |
EIF 4A1 | + | + | + | + | ++ | + |
ubiquitin-conjugating enzyme 7 | – | + | + | = | = | = |
ariadne homolog 2 (Drosophila) | + | + | + | + | + | = |
proteasome subunit, alpha type 6 | – | ++ | = | +++ | ++ | ++ |
Chaperonins | ||||||
heat shock protein, 74 kDa, A | +++ | ++ | ++ | + | + | + |
HSP86 | + | + | ++ | + | + | = |
chaperonin subunit 6a (zeta) | + | + | + | = | + | = |
Protease/protease inhibitors | ||||||
mast cell protease 5 | – | = | = | = | – | – |
calpain 12 | ++ | ++ | + | +++ | ++ | ++ |
secreted phosphoprotein 1 | +++ | +++ | +++ | = | ++ | +++ |
protease (prosome, macropain) 26S subunit, ATPase 1 | ++ | +++ | +++ | +++ | ++ | ++ |
heparin cofactor II | + | + | = | = | + | + |
calponin 2 | + | + | = | = | = | + |
extracellular proteinase inhibitor | = | ++ | + | +++ | ++ | ++ |
serine protease inhibitor 4 | + | ++ | = | = | = | + |
matrix metalloproteinase 2 | = | – | – | – | – | – |
plasminogen activator inhibitor, type I | – – | – – | – – | – – | – – | – – |
Calcium binding/signaling | ||||||
Annexin A6 | + | + | = | + | = | + |
Calcitonin activity modifying protein 2 | + | + | + | + | + | ++ |
Phenylalkylamine Ca2+ antagonist (emopamil) binding protein | + | + | + | + | + | + |
Tumor-associated calcium signal transducer 2 | ++ | ++ | + | + | = | + |
Histidine rich calcium binding protein | – | – | = | = | – | – |
Calcium binding protein, intestinal |
| + | + | + | + | + |
Calmodulin | + | + | + | + | + | + |
Calmodulin 2 | + | + | = | + | + | + |
Calmodulin 3 | – | – | = | – | – | – |
Calmodulin binding protein 1 | ++ | + | + | = | = | = |
Others | ||||||
general p62 | + | + | = | + | = | = |
Usmg4 gene | – | – | = | – | = | – |
Sid394p | + | + | + | + | + | + |
histocompatibility 2, D region locus 1 | + | + | = | ++ | = | = |
Histocompatibility 2, K region | ++ | +++ | ++ | +++ | +++ | ++ |
histocompatibility 2, Q region locus 7 |
| + |
| ++ | + | = |
upregulated by 1,25-dihydroxyvitamin D-3 | = | + |
| ++ | + | = |
Sid23p | + | + | + | + | + | + |
stathmin-like-protein RB3 | + | + | + | + | + | = |
coagulation factor XII (Hageman factor) | – | – | – | – | – | – |
hemoglobin alpha, adult chain 1 | – | – | – | – | = | – – |
hemoglobin, beta adult major chain | – | – | – | – | – | = |
amyloid beta (A4) precursor protein | + | + |
| ++ | + | + |
brain protein 44-like protein | – – | – | – – | – | – | – |
proline rich protein expressed in brain | + | ++ | + | + | + | + |
prion protein | – | – | – | – | – | – |
interleukin 1 superfamily 1, epsilon | – | – | – | – | – | – |
tumor necrosis factor, alpha-induced protein 2 | + | + | + | + | = | = |
ZAP3 protein | + | + | + | + | = | + |
metallothionein 1 |
| + | ++ | + | + | = |
Down syndrome critical region gene 1-like 2 | + | + | + | + | + | = |
aryl-hydrocarbon receptor-interacting protein | ++ | + | + | + | + | = |
ADP-ribosylation-like factor 6 interacting protein | + | + | + | + | + | + |
ceroid lipofuscinosis, neuronal 3, juvenile | + | + | + | + | + | + |
stromal antigen 1 | + | + | + | + | = | = |
NPC derived proline rich protein 1 | = | + | = | + | + | + |
complement component 1, | – | – | – | – | – | – |
Mouse MHC class I Q8/9d cell surface antigen | ++ | ++ | + | +++ | ++ | + |
interferon inducible protein 1 | + | + | = | = | + | = |
found in inflammatory zone 2 | – | – | = | – | – | – |
B-cell receptor-associated protein 37 | + | + | + | + | + | = |
ADP-ribosylation factor 1 | + | ++ | + | ++ | + | + |
Leukemia-associated gene | ++ | ++ | + | + | = | – |
Fat specific gene 27 | – | – | – | – | = | – |
Trp4-associated protein TAP1 | + | + | + | + | + | + |
hypoxia induced gene 2 (Hig2) | + | + | + | + | = | = |
Cerebellar postnatal development protein-1 (Cpd1) mRNA, partial cds | ++ | ++ | + | = | = | – |
etoposide induced 2.4 mRNA | + | + | + | + | + | + |
major urinary protein 2 | – | – | – | – | = | = |
AE-binding protein 2 | ++ | + | + | + | = | = |
cysteine-rich protein 3 | – | = | = | = | – | – |
selenoprotein P, plasma, 1 | – | = | = | – | – | – |
Ceruloplasmin | + | ++ | + | ++ | + | = |
lymphocyte antigen 6 complex | – | = | – | – | – | |
collapsin response mediator protein 1 | = | = | = | ++ | – | ++ |
sid2895p | = | + | + | + | + | = |
retinol binding protein 4, plasma | – – | – | – – | – – | – – | – – |
sperm specific antigen 1 | + | + | + | = | = | = |
folate binding protein 1 | – | = | + | ++ | ++ | + |
sterol carrier protein 2, liver | – | – | – | = | – | – |
complement component 3 | – | – | – | – | – | – |
stromal cell derived factor 1 | – | – | – | – | – | – |
apolipoprotein B editing complex 2 | – | – | – | – | – | – |
MARCKS-like protein | + | ++ | + | + | ++ | + |
growth arrest specific 5 | + | ++ | + | + | + | + |
gene rich cluster, C2f gene | = | + | + | + | + | + |
acidic nuclear phosphoprotein 32 | ++ | + | ++ | = | + |
|
Adipsin | – – | – – | – – | – – | – – | – – |
macrophage migration inhibitory factor | + | = | + | = | + | = |
immunoglobulin heavy chain Sa1 | – | – | = | = | – | – |
peroxiredoxin 4 | + | ++ | + | + | + | = |
ankyrin 1, erythroid | – | – | = | = | – | – |
makorin, ring finger protein, 1 | – | = | – | – | = | = |
Thrombomodulin | – | = | – | – | – | – |
prothymosin alpha | + | ++ | ++ | + | + | – |
Trk-fused gene | – – | – | – | – | – | – |
Fas-binding protein Daxx (DAXX) gene | – | – | – | – | – | – |
Dek | + | + | + | = | + | = |
The table displays genes that were differentially expressed in mammary gland tumors. The criteria for selection of these genes are described in the Methods section. A total of 900 (275 mouse NCI 2.7K and 625 GEM1 8.7K) were modulated two–fold. The ESTs and unnamed genes were excluded from this list. The named genes were grouped into cellular pathways using GENECARDS (http://bioinformatics.weizmann.ac.il) and by extensive review of literature. The top row denotes the tumor type. For each gene, the intensity ratios of the cognate spots in each tumor group were averaged. Every two–fold induction is shown by a "+" symbol and two fold suppression by a "- " symbol. No change in expression is denoted by "=". All blank spaces denote insufficient sample/feature data.