Tumor-Specific Biomarkers

Bladder:

• Proliferation (Ki67)
  
• EGFR (HER-1/ErbB1) by IHC
  
• EGFR (HER-1/ErbB1) by FISH
  
• HER-2/neu (ErbB2) by IHC
  
• HER-2/neu (ErbB2) by FISH
  
• p53
  
• pRb (Phospho-Retinoblastoma)
  
• PDGFR (Platelet Derived Growth Factor Receptor)
  
• PDGF (Platelet Derived Growth Factor)
  
• c-Kit
  
• SCF (Stem Cell Factor)
  
• pS6
  
• p70S6K
  
• pmTOR
  
• p63
  
• MSH2
  
• MLH1
  
• p21
  
• p16
  
• IGF-1R (Insulin-Like Growth Factor Recpetor 1)
  
• pHER-1
  
• pHER-2

Brain:

• c-Kit
  
• EGFR (HER-1/ErbB1)
  
• PTEN
  
• Telomerase
  
• RAR (Retinoic Acid Receptor)
  
• p53
  
• pAKT
  
• HER-2/neu (ErbB2)
  
• HER-4 (ErbB4)
  
• PDGFR (Platelet Derived Growth Factor Receptor)
  
• PDGF (Platelet Derived Growth Factor)
  
• Rb
  
• VEGF (Vascular Endothelial Growth Factor)
  
• VEGFR (Vascular Endothelial Growth Factor Receptor)
  
• pRAF
  
• SCF (Stem Cell Factor)
  
• IGF-1R (Insulin-Like Growth Factor Receptor 1)
  
• pS6
  
• p70S6K
  
• pmTOR
  
• EGFR VIII
  
• Heregulin

Breast:

• ER (Estrogen Receptor)
  
• PgR (Progesterone Receptor)
  
• Proliferation (Ki67)
  
• EGFR (HER-1/ErbB1) by IHC
  
• EGFR (HER-1/ErbB1) by FISH
  
• HER-2/neu (ErbB2) by IHC
  
• HER-2/neu (ErbB2) by FISH
  
• HER-3 (ErbB3)
  
• HER-4 (ErbB4)
  
• Topo I
  
• Topo II
  
• p53
  
• VEGF C
  
• VEGF D
  
• VEGFR3
  
• MDR (Multi Drug Resistance)
  
• Telomerase
  
• c-Kit
  
• PDGFR (Platelet Derived Growth Factor Receptor)
  
• PDGF (Platelet Derived Growth Factor)
  
• TS (Thymidylate Synthase)
  
• DPD (Dihydropyrimidine Dehydrogenase)
  
• IGF-1R (Insulin-Like Growth Factor Receptor 1)
  
• Cox-2
  
• pAKT
  
• CD31
  
• SCF (Stem Cell Factor)
  
• pS6
  
• p70S6K
  
• pmTOR
  
• E-cadherin
  
• AIB-1
  
• PTEN
  
• EpCAM
  
• GST-Pi
  
• EGFR VIII
  
• Heregulin
  

CLL (Chronic Lymphocytic Leukemia):

• Cyclin D1
  
• CD20
  
• CD52
  
• Bcl-1
  
• FAS
  
• ATM
  
• Rb
  
• ZAP70

Colon:

• Proliferation (Ki67)
  
• EGFR (HER-1/ErbB1) by IHC
  
• EGFR (HER-1/ErbB1) by FISH
  
• HER-2/neu (ErbB2)
  
• Topo I
  
• Topo II
  
• c-Kit
  
• p53
  
• VEGF
  
• VEGFR
  
• Telomerase
  
• RAR (Retinoic Acid Receptor)
  
• MDR (Multi-Drug Resistance)
  
• Cox-2
  
• PDGF (Platelet-Derived Growth Factor)
  
• PDGFR (Platelet-Derived Growth Factor Receptor)
  
• pRAF
  
• TS (Thymidylate Synthase)
  
• TGF-alpha (Transforming Growth Factor Alpha)
  
• DPD (Dihydropyrimidine Dehydrogenase)
  
• CD31
  
• SCF (Stem Cell Factor)
  
• pAKT
  
• VEGF (Vascular Endothelial Growth Factor)
  
• E-cadherin

GIST / Sarcoma:

• c-Kit
  
• pc-Kit
  
• PDGF (Platelet-Derived Growth Factor)
  
• PDGFR (Platelet-Derived Growth Factor Receptor)
  
• SCF (Stem Cell Factor)
  
• Rb (Retinoblastoma)
  
• p53

Head and Neck:

• EGFR (HER-1/ErbB1) by IHC
  
• EGFR (HER-1/ErbB1) by FISH
  
• HER-2/neu (ErbB2) by IHC
  
• HER-2/neu (ErbB2) by FISH
  
• pAKT
  
• TGF-alpha
  
• Rb (Retinoblastoma)
  
• pS6
  
• p70S6K
  
• pmTOR

Kidney:

• EGFR (HER-1/ErbB1)
  
• HER-2/neu (ErbB2)
  
• HER-3 (ErbB3)
  
• TGF-alpha
  
• Heregulin
  
• MDR (Multi-Drug Resistance)
  
• PTEN
  
• pERK1/2
  
• pAKT
  
• EGFR VIII

Lung:

• Proliferation (Ki67)
  
• EGFR (HER-1/ErbB1) by IHC
  
• EGFR (HER-1/ErbB1) by FISH
  
• HER-2/neu (ErbB2) by IHC
  
• HER-2/neu (ErbB2) by FISH
  
• HER-3 (ErbB3)
  
• HER-4 (ErbB4)
  
• Topo I
  
• Topo II
  
• p53
  
• Heregulin
  
• Rb (Retinoblastoma)
  
• TGF-alpha (Transforming Growth Factor Alpha)
  
• ER-alpha
  
• ER-beta
  
• pS6
  
• p70S6K
  
• pmTOR
  
• EGFR VIII

Ovarian:

• Proliferation (Ki67)
  
• EGFR (HER-1/ErbB1) by IHC
  
• EGFR (HER-1/ErbB1) by FISH
  
• HER-2/neu (ErbB2) by IHC
  
• HER-2/neu (ErbB2) by FISH
  
• HER-3 (ErbB3)
  
• HER-4 (ErbB4)
  
• Topo I
  
• Topo II
  
• p53
  
• c-Kit
  
• PDGF (Platelet-Derived Growth Factor)
  
• PDGFR (Platelet-Derived Growth Factor Receptor)
  
• PTEN
  
• TGF-alpha (Transforming Growth Factor Alpha)
  
• VEGF (Vascular Endothelial Growth Factor)
  
• VEGFR (Vascular Endothelial Growth Factor Receptor)
  
• Telomerase
  
• pS6
  
• p70S6K
  
• pmTOR
  
• p63
  
• Cleaved Caspase 3
  
• MDR (Multi-Drug Resistance)

Pancreas:

• c-Kit
  
• SCF (Stem Cell Factor)
  
• PDGF (Platelet-Derived Growth Factor)
  
• PDGFR (Platelet-Derived Growth Factor Receptor)
  
• IGF-1R (Insulin-Like Growth Factor Receptor 1)
  
• EGFR (HER-1/ErbB1) by IHC
  
• EGFR (HER-1/ErbB1) by FISH
  
• HER-2/neu (ErbB2)
  
• MDR (Multi-Drug Resistance)
  
• Cox-2
  
• Topo I
  
• Telomerase
  
• Cyclin D
  
• Survivin

Prostate:

• Proliferation (Ki67)
  
• EGFR (HER-1/ErbB1)
  
• HER-2/neu (ErbB2)
  
• p53
  
• Topo II
  
• Bcl-2
  
• CD31
  
• PTEN
  
• VEGF (Vascular Endothelial Growth Factor)
  
• VEGFR (Vascular Endothelial Growth Factor Receptor)
  
• c-Kit
  
• PDGF (Platelet-Derived Growth Factor)
  
• PDGFR (Platelet-Derived Growth Factor Receptor)
  
• IGF-1R (Insulin-Like Growth Factor Receptor 1)
  
• ET-1 Receptor
  
• SCF (Stem Cell Factor)
  
• pS6
  
• p70S6K
  
• pmTOR
  
• MUC1

Therapy-Specific Biomarkers

Small Molecules / Tyrosine Kinase Inhibitors (TKI’s)

Gleevec™(imatinib):

• c-Kit
  
• pc-Kit
  
• PDGF (Platelet-Derived Growth Factor)
  
• PDGFR (Platelet-Derived Growth Factor Receptor)
  
• pAKT
  
• pS6
  
• p70S6K
  
• pmTOR
  
• PTEN
  
• SCF (Stem Cell Factor)

Iressa™(gefitnib):

• EGFR (HER-1/ErbB1) by IHC
  
• EGFR (HER-1/ErbB1) by FISH
  
• HER-2/neu (ErbB2)
  
• HER-3 (ErbB3)
  
• HER-4 (ErbB4)
  
• TGF-alpha (Transforming Growth Factor Alpha)
  
• Heregulin
  
• pErk1/2
  
• pAKT
  
• pS6
  
• p70S6K
  
• pmTOR
  
• pEGFR (pHER-1/ErbB1)

Monoclonal Antibodies

Herceptin™(traztuzumab):

• pAKT
  
• pErk1/2
  
• EGFR (HER-1/ErbB1)
  
• HER-2/neu (ErbB2) by IHC
  
• HER-2/neu (ErbB2) by FISH
  
• HER-3 (ErbB3)
  
• HER-4 (ErbB4)
  
• TGF-alpha (Transforming Growth Factor Alpha)
  
• Heregulin
  
• pHER-2 (pErbB2)
  
• IGF-1R (Insulin-Like Growth Factor Receptor 1)
  
• pS6
  
• p70S6K
  
• pmTOR
  
• PTEN

Chemotherapy

Xeloda™(capeciteabine) / 5-FU:

• TS (Thymidylate Synthase)
  
• DPD (Dihydropyrimidine Dehydrogenase)

Topoisomerase Inhibitors:

• Topo I
  
• Topo II

Fluorescent Rapamyacin:

• pS6
  
• pAKT
  
• PTEN

Pathway-Specific Biomarkers

erbB Receptor Inhibition:

EGFR (HER-1/ErbB1) by IHC EGFR (HER-1/ErbB1) by FISH HER-2/neu (ErbB2) by IHC HER-2/neu (ErbB2) by FISH HER-3 (ErbB3) HER-4 (ErbB4) pEGFR (pHER-1/ErbB1) pHER-2 (pErbB2) pHER-3 (pErbB3) TGF-alpha (Transforming Growth Factor Alpha) Heregulin pAKT pERK1/2 MapK pMapK TGF-Beta (Transforming Growth Factor Beta)

EGFR (HER-1/ErbB1) by IHC HER-3 (ErbB3)

mTOR Pathway:

• PTEN
  
• P70S6K
  
• pP70S6K
  
• pmTOR
  
• PMNK
  
• p4EBPI
  
• pS6
  
• pBCR
  
• pCRK
  
• peIF4E

Farnesyl Transferase Inhibition:

• pRHO
  
• cRAF
  
• pRAF
  
• RFC (Reduced Folate Carrier)
  
• FGPS (Folypolyglutamate Synthetase)
  
• E2F1
  
• Rb (Retinoblastoma)
  
• pRb (Phospho-Retinoblastoma)

Anti-Folate and Thymidylate Synthase Inhibition:

• DHFR (Dihydrofolate Reductase)
  
• DPD (Dihydropyrimidine Dehydrogenase)
  
• TS (Thymidylate Synthase)
  
• GARFT (Glycinamide Ribonucleotide Fomyltransferase)
  
• RFC (Reduced Folate Carrier)
  
• FGPS (folylpolyglutamate Synthetase)
  
• E2F1
  
• Rb (Retinoblastoma)
  
• pRb (Phospho-Retinoblastoma)

Angiogenesis / VEGF Inhibition:

• Factor 8
  
• CD31
  
• VEGF (Vasular Endothelial Growth Factor)
  
• VEGFR (Vascular Endothelial Growth Factor Receptor)
  
• KDR
  
• Flt1
  
• PTN (Pleiotrophin)
  
• PACK
  
• pFlt1

Hormone Antagonism / Aromatase Inhibition:

• PgR
  
• pPgR
  
• ER-alpha
  
• ER-beta
  
• L7SPA
  
• SRC-1 (Steroid Receptor Coactivators)
  
• AKT3

Cell Cycle Control / Proliferation:

p21 p27 Rb (Retinoblastoma) pRB (Phospho-Retinoblastoma) E2F1 Stat3 Cyclin D1 Cyclin D2 Cyclin D3 Cyclin E Cyclin B Cyclin A pSTAT3 CDK1 CDK2 CDK4 CDK6 c-Myc Proliferation (Ki67) PCNA (Proliferating Cell Nuclear Antigen) p53 p16 Topo I Topo II Survivin

Survivin

Multi-Drug Resistance:

• MDR1 (Multi-Drug Resistance)
  
• MRP1
  
• LRP
  
• MRP2
  
• MRP3
  
• MRP4
  
• GST-pi (Glutothione Sulfonamino Transferase)
  
• MGMT (Methylguanine DNA Methyltransferase)
  

DNA Repair:

• PCNA (Proliferating Cell Nuclear Antigen)
  
• BRCA1
  
• ERCC2
  
• GADD45
  
• MLH1
  
• MSH2
  
• MSH3
  
• MSH6
  
• TFIIH

Apoptosis:

• p53
  
• BAX
  
• Bcl-2
  
• Bcl-XL
  
• PARP
  
• BAK
  
• Cleaved Caspase 3
  
• TUNEL
  
• TSPI (Thrombospondin)

p53 Pathway / Differentiation:

• MDM2
  
• p14
  
• p16
  
• p19
  
• p21
  
• p27
  
• p53
  
• p57
  
• p63
  
• p73

Retenoic Acid Receptor:

• RXR-alpha
  
• RXR-beta

Protein Degradation:

• HSP70
  
• HSP90
  
• c-CBL

Metalloprotease Activity / Metastatic Potential:

• MMP1 (Matrix Metaloprotease)
  
• MMP2
  
• MMP3
  
• MMP9
  
• MMP11
  
• cMet
  
• pMet
  
• HGF
  
• pAKT
  
• Alpha6Beta4 (Integrin)
  
• uPA (Uroplasminogen Activator)
  
• uPAR (Uroplasminogen Activator Receptor)
  
• Alpha 5 (Integrin)
  
• Stromolysin 3
  
• PAII

Drug Detoxification:

• GST-pi (Glutothione Sulfonamino Transferase)
  
• GSTA1
  
• GSTA4

To consult with TMD’s Translational Biomarker Specialists, call 866.897.7350 ex 213 or email TMD Translational Biomarker Services at biomarkers@tmdlab.com.