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{"sheet":"Assayed proteins","index":0,"n_rows":101,"n_cols":7,"rows_kept":101,"flags":["formulas_cached_only"]}
["Supplementary Table 2 for \"Do serum biomarkers really measure breast cancer?\" by Jesneck et al."]
["Protein and antibody information"]
[]
["Protein Symbol","Protein Name","UniProt Accession Number","Protein Function","Antibody source (vendor)","Plex No.","References"]
["ACTH","Adrenocorticotropic hormone","P01189","Hormone","Linco",1]
["Adiponectin","Adiponectin","Q15848","Adipokine","Linco",2,"Chen et al., Kang et al., Miyoshi et al."]
["AFP","Alpha-fetoprotein","P02771","Cancer antigen","Fitzjerald",3,"Eskelinen et al."]
["Angiostatin","Angiostatin","P00747","Anti-angiogenic",null,4,"Indraccolo et al."]
["Apo B-100","Apolipoprotein B-100 ","P04114","Lipid binding","Linco",5,"Morales et al."]
["APO-A1","Apolipoprotein A1","P02647","Lipid binding","Linco",5,"Huang et al., Morales et al."]
["Apo-AII","Apolipoprotein Apo A2","P02652","Lipid binding","Linco",5]
["Apo-CII","Apolipoprotein Apo C2","P02655","Lipid binding","Linco",5]
["Apo-CIII","Apolipoprotein Apo C3","P02656","Lipid binding","Linco",5]
["Apo-E","Apolipoprotein Apo E","P02649","Lipid binding","Linco",5]
["CA 15-3","cancer antigen 15-3",null,"Cancer antigen","Fujerebio (kindly provided)",6,"Eskelinen et al., Drukier et al., Gadducci et al., Nakata et al., Omar et al., Rubach et al."]
["CA 19-9","carbohydrate antigen 19-9",null,"Cancer antigen","Fujerebio (kindly provided)",6,"Drukier et al., Gadducci et al., Yenisey et al."]
["CA-125","cancer antigen 125","Q8WXI7","Cancer antigen","Fujerebio (kindly provided)",6,"Bast et al., Drukier et al., Gadducci et al., Omar et al., Yenisey et al."]
["CA72-4","cancer antigen 72-4",null,"Cancer antigen","Fujerebio (kindly provided)",3]
["CD40L (TRAP)","CD40 ligand","P29965","Cytokine","Linco",7,"Dehqanzada et al., Tong et al."]
["CEA","carcinoembryonic antigen",null,"Cancer antigen","Fujerebio",6,"Eskelinen et al., Drukier et al., Nakata et al., Rubach et al."]
["Cytokeratin 19","Keratin, type I cytoskeletal 19","P08727","Apoptosis-related","Progen (Germany)",6,"Nakata et al."]
["DR5","TRAIL receptor 5","Q89544","Apoptosis-related","Invitrogen",8,"Drukier et al., Wang et al."]
["EGF","Pro-epidermal growth factor","P01133","Growth factor","Invitrogen",8,"Bast et al., Drukier et al."]
["EGFR","Epidermal growth factor receptor ","P00533","Growth factor receptor","R&D Systems",6,"Asgeirsson et al., Drukier et al."]
["Eotaxin","CCL11","P51671","Chemokine","Invitrogen",8,"Dehqanzada et al."]
["ErbB2","eceptor tyrosine-protein kinase erbB-2","P04626","Growth factor receptor","R&D Systems",6,"Drukier et al., Eskelinen et al."]
["E-Selectin","E-Selectin",null,"Adhesion","Linco",15,"Regidor et al."]
["Fas","soluble fatty acid synthase",null,"Apoptosis-related","Linco",11,"Bast et al., Bewick et al., Drukier et al."]
["FasL","soluble Fas ligand",null,"Apoptosis-related","Linco",11,"Drukier et al."]
["FGF-b","basic Fibroblast Growth Factor",null,"Growth factor","Invitrogen",8,"Drukier et al., Sliutz et al."]
["Fibrinogen","Fibrinogen",null,"Blood clotting","Linco",14]
["Fractalkine","Fractalkine","P78423","Cytokine","Bio-Rad",9,"Dehqanzada et al."]
["FSH","Follicle-stimulating hormone","P01225","Hormone","Linco",1,"Pannuti et al."]
["G-CSF","Granulocyte colony-stimulating factor ","P09919","Chemokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["GH","Growth Hormone",null,"Hormone","Invitrogen",1]
["GM-CSF","Granulocyte-macrophage colony-stimulating factor","P04141","Chemokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["GROa","Growth-regulated alpha protein","P09341","Cytokine","Bio-Rad",9,"Dehqanzada et al."]
["Haptoglobin","Haptoglobin","Q14552","Binds hemoglobin in plasma","Linco",14,"Huang et al."]
["HGF","Hepatocyte growth factor","P14210","Growth factor","Invitrogen",8,"Drukier et al., Wilson et al."]
["ICAM-1","Soluble cell adhesion molecule 1",null,"Adhesion","Linco",15,"Regidor et al."]
["IFN-a","Interferon alpha",null,"Cytokine","Linco",16,"Dehqanzada et al., Indraccolo et al."]
["IFN-g","Interferon gamma","P01579","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IGFBP-1","Insulin-like growth factor-binding protein 1 ","P08833","GF binding protein","R&D Systems",3,"Schairer et al."]
["IL-10","Interleukin-10","P22301","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-12p40","Interleukin-12 subunit beta subunit p40","P29460","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-13","Interleukin-13","P35225","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-15","Interleukin-15","P40933","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-17","Interleukin-17",null,"Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-1a","Interleukin-1 alpha","P01583","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-1b","Interleukin-1 beta","P01584","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-1Ra","Interleukin-1 receptor antagonist protein","P18510","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-2","Interleukin-2","P60568","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-2R","Interleukin-2 receptor",null,"Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-4","Interleukin-4","P05112","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-5","Interleukin-5","P05113","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-6","Interleukin-6","P05231","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-6R","Soluble Interleukin-6 receptor",null,"Cytokine receptor","Invitrogen",6,"Dehqanzada et al."]
["IL-7","Interleukin-7","P13232","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["IL-8","Interleukin-8","P10145","Cytokine","Invitrogen",8,"Dehqanzada et al., Drukier et al., Xu et al."]
["IP-10","C-X-C motif chemokine 10","P02778","Cytokine","Invitrogen",8,"Dehqanzada et al."]
["Kallikrein 10","Kallikrein-10","O43240","Serine protease","Kindly provided by Dr. Elefterios Diamandis, University of Toronto",3,"Bast et al., Yousef et al."]
["Kallikrein 8","Kallikrein-8","O60259","Serine protease","Kindly provided by Dr. Elefterios Diamandis, University of Toronto",null,"Bast et al., Drukier et al., Yousef et al."]
["Leptin","Leptin","P41159","Adipokine","Linco",2,"Chen et al., Coskun et al."]
["LH","Lutropin subunit beta","P01229","Hormone","Linco",1,"Pannuti et al."]
["MCP-1","C-C motif chemokine 2","P13500","Chemokine","Bio-Rad",9,"Dehqanzada et al., Drukier et al."]
["MCP-2","C-C motif chemokine 8","P80075","Chemokine","Bio-Rad",9]
["MCP-3","C-C motif chemokine 7","P80098","Chemokine","Bio-Rad",9]
["Mesothelin","Mesothelin","Q13421","Unknown","Custom generated by Genway",6,"Bast et al., Uehara et al."]
["MICA","MHC class I polypeptide-related sequence A","Q29983","Stress-induced antigen recognized by NK cells","R&D Systems",10,"Yenisey et al."]
["MIF","Macrophage migration inhibitory factor","P14174","Chemokine","Linco",11,"Xu et al."]
["MIG","monokine induced by interferon-gamma",null,"Chemokine","Bio-Rad",9,"Drukier et al."]
["MIP-1a","C-C motif chemokine 3","P10147","Chemokine","Invitrogen",8,"Dehqanzada et al., Drukier et al., Wu et al."]
["MIP-1b","C-C motif chemokine 4","P13236","Chemokine","Invitrogen",8,"Drukier et al., Wu et al."]
["MMP-1","Interstitial collagenase","P03956","Protease","R&D Systems",12,"Wu et al."]
["MMP-12","Macrophage metalloelastase","P39900","Protease","R&D Systems",12,"Wu et al."]
["MMP-13","Collagenase 3","P45452","Protease","R&D Systems",12,"Wu et al."]
["MMP-2","72 kDa type IV collagenase","P08253","Protease","R&D Systems",12,"Drukier et al., Somiari et al., Wu et al."]
["MMP-3","Stromelysin-1","P08254","Protease","R&D Systems",12,"Drukier et al., Wu et al."]
["MMP-7","Matrilysin ","P09237","Protease","R&D Systems",12,"Drukier et al., Wu et al."]
["MMP-8","Neutrophil collagenase","P22894","Protease","R&D Systems",12,"Wu et al."]
["MMP-9","Matrix metalloproteinase-9","P14780","Protease","R&D Systems",13,"Somiari et al., Wu et al."]
["MPO","Myeloperoxidase","P05164","Lysosomal enzyme","Linco",11,"Yang et al."]
["NGF","Beta-nerve growth factor","P01138","Growth factor","Bio-Rad",9,"Hondermarck et al."]
["PAI-I","Plasminogen activator inhibitor 1","P05121","Plasminogen activator inhibitor","Linco",11,"Kang et al., Luqmani et al."]
["Prolactin","Prolactin","P01236","Hormone","Linco",1,"Coskun et al., Pannuti et al."]
["RANTES","C-C motif chemokine 5","P13501","Chemokine","Invitrogen",8,"Dehqanzada et al., Drukier et al."]
["Resistin","Resistin","Q9HD89","Adipokine","Linco",2,"Kang et al."]
["S-100","S-100",null,"Cancer biomarker","Abcam",10,"Salama et al."]
["SAA","Serum amyloid A protein","P02735","Acute phase protein","Linco",14]
["SCC","Squamous cell carcinoma antigen",null,"Cancer antigen","Fujerebio",10]
["TGFa","Protransforming growth factor alpha ","P01135","Growth factor","Bio-Rad",9]
["TNF-a","Tumor necrosis factor","P01375","Cytokine","Linco",16,"Dehqanzada et al., Drukier et al., Wang et al."]
["TNF-RI","Tumor necrosis factor receptor superfamily member 1A","P19438","Cytokine receptor","Invitrogen",8,"Dehqanzada et al., Drukier et al., Wang et al."]
["TNF-RII","Tumor necrosis factor receptor superfamily member 1B","P20333","Cytokine receptor","Invitrogen",8,"Dehqanzada et al., Drukier et al., Wang et al."]
["TSH","Glycoprotein hormones alpha chain","P01215","Hormone","Linco",1,"Ohuchi et al., Pannuti et al."]
["TTR","Transthyretin","P02766","Carrier of thyroxine","Linco",10,"Ramaker et al."]
["ULBP-1","NKG2D ligand 1","Q9BZM6","UL16-binding protein","R&D Systems",10]
["ULBP-2","NKG2D ligand 2","Q9BZM5","UL16-binding protein","R&D Systems",10]
["ULBP-3","NKG2D ligand 3","Q9BZM4","UL16-binding protein","R&D Systems",10]
["VCAM-1","soluble Vascular cell adhesion protein 1",null,"Adhesion","Linco",15,"Regidor et al."]
["VEGF","Vascular endothelial growth factor A","P15692","Growth/angiogenic factor","Linco",8,"Coskun et al., Drukier et al. Gasparini et al., Xu et al."]

{"sheet":"Literature references","index":1,"n_rows":39,"n_cols":1,"rows_kept":39,"flags":["formulas_cached_only"]}
["Referenced Paper"]
["Asgeirsson, K.S., et al., Serum epidermal growth factor receptor and HER2 expression in primary and metastatic breast cancer patients. Breast Cancer Res, 2007. 9(6): p. R75."]
["Bast, R.C., Jr., et al., Prevention and early detection of ovarian cancer: mission impossible? Recent Results Cancer Res, 2007. 174: p. 91-100."]
["Bewick, M., et al., Soluble Fas (CD95) is a prognostic factor in patients with metastatic breast cancer undergoing high-dose chemotherapy and autologous stem cell transplantation. J Hematother Stem Cell Res, 2001. 10(6): p. 759-68."]
["Chen, D.C., et al., Serum adiponectin and leptin levels in Taiwanese breast cancer patients. Cancer Lett, 2006. 237(1): p. 109-14."]
["Coskun, U., et al., Serum leptin, prolactin and vascular endothelial growth factor (VEGF) levels in patients with breast cancer. Neoplasma, 2003. 50(1): p. 41-6."]
["Dehqanzada, Z.A., et al., Assessing serum cytokine profiles in breast cancer patients receiving a HER2/neu vaccine using Luminex technology. Oncol Rep, 2007. 17(3): p. 687-94."]
["Drukier, A.K., et al., High-sensitivity blood-based detection of breast cancer by multi photon detection diagnostic proteomics. J Proteome Res, 2006. 5(8): p. 1906-15."]
["Eskelinen, M., et al., Serum tumour markers CEA, AFP, CA 15-3, TPS and Neu in diagnosis of breast cancer. Anticancer Res, 1997. 17(2B): p. 1231-4."]
["Gadducci, A., et al., Serum tumor markers in the management of ovarian, endometrial and cervical cancer. Biomed Pharmacother, 2004. 58(1): p. 24-38."]
["Gasparini, G., et al., Thrombospondin-1 and -2 in node-negative breast cancer: correlation with angiogenic factors, p53, cathepsin D, hormone receptors and prognosis. Oncology, 2001. 60(1): p. 72-80."]
["Hondermarck, H., Potential role for NGF in breast cancer. Stem Cells, 2000. 18(5): p. 386-7."]
["Huang, H.L., et al., Biomarker discovery in breast cancer serum using 2-D differential gel electrophoresis/ MALDI-TOF/TOF and data validation by routine clinical assays. Electrophoresis, 2006. 27(8): p. 1641-50."]
["Indraccolo, S., et al., Differential effects of angiostatin, endostatin and interferon-alpha(1) gene transfer on in vivo growth of human breast cancer cells. Gene Ther, 2002. 9(13): p. 867-78."]
["Kang, J.H., B.Y. Yu, and D.S. Youn, Relationship of serum adiponectin and resistin levels with breast cancer risk. J Korean Med Sci, 2007. 22(1): p. 117-21."]
["Luqmani, Y.A., et al., Clinical implications of urokinase and tissue type plasminogen activators and their inhibitor (PAI-1) in breast cancer tissue. Oncol Rep, 2002. 9(3): p. 645-51."]
["Miyoshi, Y., et al., Association of serum adiponectin levels with breast cancer risk. Clin Cancer Res, 2003. 9(15): p. 5699-704."]
["Morales, M., et al., Effects of tamoxifen on serum lipid and apolipoprotein levels in postmenopausal patients with breast cancer. Breast Cancer Res Treat, 1996. 40(3): p. 265-70."]
["Nakata, B., et al., Serum CYFRA 21-1 (cytokeratin-19 fragments) is a useful tumour marker for detecting disease relapse and assessing treatment efficacy in breast cancer. Br J Cancer, 2004. 91(5): p. 873-8."]
["Ohuchi, N., et al., [Levels of circulating tumor-associated glycoprotein (TAG-72) in patients with carcinoma using a novel tumor marker, CA 72-4]. Gan To Kagaku Ryoho, 1988. 15(9): p. 2767-72."]
["Omar, Y.T., et al., Preoperative and longitudinal serum levels of CA 125 and CA 15.3 in patients with breast cancer. Int J Biol Markers, 1989. 4(2): p. 81-6."]
["Pannuti, F., et al., Prolactin levels and hormonal profile in postmenopausal patients with advanced breast cancer during endocrine treatments. Chemioterapia, 1985. 4(2): p. 127-34."]
["Ramaker, J. and W.G. Wood, Transthyretin--an explanation of \"anomalous\" serum thyroid hormone values in severe illness? J Clin Chem Clin Biochem, 1990. 28(3): p. 155-61."]
["Regidor, P.A., et al., Expression of the cell adhesion molecules ICAM-1 and VCAM-1 in the cytosol of breast cancer tissue, benign breast tissue and corresponding sera. Eur J Gynaecol Oncol, 1998. 19(4): p. 377-83."]
["Rubach, M., et al., Serum CA 15.3, CEA and ESR patterns in breast cancer. Int J Biol Markers, 1997. 12(4): p. 168-73."]
["Salama, I., et al., A review of the S100 proteins in cancer. Eur J Surg Oncol, 2008. 34(4): p. 357-64."]
["Schairer, C., et al., Serum concentrations of IGF-I, IGFBP-3 and c-peptide and risk of hyperplasia and cancer of the breast in postmenopausal women. Int J Cancer, 2004. 108(5): p. 773-9."]
["Sliutz, G., et al., Serum evaluation of basic FGF in breast cancer patients. Anticancer Res, 1995. 15(6B): p. 2675-7."]
["Somiari, S.B., et al., Circulating MMP2 and MMP9 in breast cancer -- potential role in classification of patients into low risk, high risk, benign disease and breast cancer categories. Int J Cancer, 2006. 119(6): p. 1403-11."]
["Tolino, A., et al., [Significance of serum determination of beta-HCG in patients with breast cancer]. Minerva Ginecol, 1988. 40(11): p. 629-33."]
["Tong, A.W., et al., Growth-inhibitory effects of CD40 ligand (CD154) and its endogenous expression in human breast cancer. Clin Cancer Res, 2001. 7(3): p. 691-703."]
["Uehara, N., Y. Matsuoka, and A. Tsubura, Mesothelin promotes anchorage-independent growth and prevents anoikis via extracellular signal-regulated kinase signaling pathway in human breast cancer cells. Mol Cancer Res, 2008. 6(2): p. 186-93."]
["Wang, T.T. and J. Jeng, Coordinated regulation of two TRAIL-R2/KILLER/DR5 mRNA isoforms by DNA damaging agents, serum and 17beta-estradiol in human breast cancer cells. Breast Cancer Res Treat, 2000. 61(1): p. 87-96."]
["Wilson, S.E., et al., Hepatocyte growth factor (HGF), keratinocyte growth factor (KGF), and their receptors in human breast cells and tissues: alternative receptors. Cell Mol Biol Res, 1994. 40(4): p. 337-50."]
["Wu, Z.S., et al., Prognostic significance of MMP-9 and TIMP-1 serum and tissue expression in breast cancer. Int J Cancer, 2008. 122(9): p. 2050-6."]
["Xu, X., et al., Overexpression of macrophage migration inhibitory factor induces angiogenesis in human breast cancer. Cancer Lett, 2008. 261(2): p. 147-57."]
["Yang, J., et al., Relationships between polymorphisms in NOS3 and MPO genes, cigarette smoking and risk of post-menopausal breast cancer. Carcinogenesis, 2007. 28(6): p. 1247-53."]
["Yenisey, C. and G. Guner, Serum MCA, CA 125 and CA 19.9 determination in primary breast cancer. Biochem Soc Trans, 1996. 24(2): p. 302S."]
["Yousef, G.M., et al., Human kallikrein 5: a potential novel serum biomarker for breast and ovarian cancer. Cancer Res, 2003. 63(14): p. 3958-65."]