The human secretome atlas initiative: Implications in health and disease conditions

Biochimica et Biophysica Acta - Proteins and Proteomics

Volumn 1834, Issue 11, 2013, Pages 2454-2461

  Brown, Kristy J ^a   Seol, Haeri ^a   Pillai, Dinesh K ^a   Sankoorikal, Binu John ^a   Formolo, Catherine A ^b   Mac, Jenny ^c   Edwards, Nathan J ^d   Rose, Mary C ^a   Hathout, Yetrib ^a  

^a CHILDREN'S NATIONAL MEDICAL CENTER   (United States)

^b NATIONAL INSTITUTE OF STANDARDS AND TECHNOLOGY   (United States)

^c GEORGE WASHINGTON UNIVERSITY   (United States)

^d GEORGETOWN UNIVERSITY MEDICAL CENTER   (United States)

Author keywords

Biomarker; Body fluid; Glioblastoma; Primary cell; Secretome; Stable isotope

Indexed keywords

ALPHA ENOLASE; ANNEXIN; MYOMESIN; PROTEOME; SECRETOME; STROMELYSIN 2; UNCLASSIFIED DRUG; VIMENTIN;

ARTICLE; ASTROCYTE; BLOOD ANALYSIS; BODY FLUID; CELL ADHESION; CELL DEATH; CEREBROSPINAL FLUID ANALYSIS; CONTROLLED STUDY; EPITHELIUM CELL; EXTRACELLULAR MATRIX; FIBROBLAST; GLIOBLASTOMA; HUMAN; HUMAN CELL; HUMAN TISSUE; LIQUID CHROMATOGRAPHY; NUCLEOTIDE SEQUENCE; PRIMARY CELL CULTURE; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN SECRETION; PROTEOMICS; TANDEM MASS SPECTROMETRY; URINALYSIS;

BIOMARKER; BODY FLUID; GLIOBLASTOMA; PRIMARY CELL; SECRETOME; STABLE ISOTOPE;

BIOLOGICAL MARKERS; BODY FLUIDS; CELL LINE, TUMOR; CELLS, CULTURED; GLIOBLASTOMA; HUMANS; PROTEOME; PROTEOMICS; TANDEM MASS SPECTROMETRY;

EID: 84884649534     PISSN: 15709639     EISSN: 18781454     Source Type: Journal    
DOI: 10.1016/j.bbapap.2013.04.007     Document Type: Article

References (58)

1. N.A. Eisele, and D.M. Anderson Host defense and the airway epithelium: frontline responses that protect against bacterial invasion and pneumonia J. Pathog. 2011 2011 1 15
2. J.S. Rao Molecular mechanisms of glioma invasiveness: the role of proteases Nat. Rev. Cancer 3 2003 489 501 (Pubitemid 37328837)
3. K.J. Brown, C.A. Formolo, and H. Seol Advances in the proteomic investigation of the cell secretome Expert Rev. Proteomics 9 2012 337 345
4. K. Eichelbaum, M. Winter, M.B. Diaz, S. Herzig, and J. Krijgsveld Selective enrichment of newly synthesized proteins for quantitative secretome analysis Nat. Biotechnol. 30 2012 984 990
5. C.S. Jung, A.W. Unterberg, and C. Hartmann Diagnostic markers for glioblastoma Histol. Histopathol. 26 2011 1327 1341
6. C.L. Sawyers The cancer biomarker problem Nature 452 2008 548 552 (Pubitemid 351483368)
7. E. An, S. Sen, S.K. Park, H. Gordish-Dressman, and Y. Hathout Identification of novel substrates for the serine protease HTRA1 in the human RPE secretome Invest. Ophthalmol. Vis. Sci. 51 2010 3379 3386
8. R.J. Freishtat, A.M. Watson, and A.S. Benton Asthmatic airway epithelium is intrinsically inflammatory and mitotically dyssynchronous Am. J. Respir. Cell Mol. Biol. 44 2011 863 869
9. M.L. Fulcher, S. Gabriel, K.A. Burns, J.R. Yankaskas, and S.H. Randell Well-differentiated human airway epithelial cell cultures Methods Mol. Med. 107 2005 183 206
10. P.J. Boersema, T. Geiger, J.R. Wisniewski, and M. Mann Quantification of the N-glycosylated secretome by super-SILAC during breast cancer progression and in human blood samples Mol. Cell. Proteomics 12 2013 158 171
11. C.A. Formolo, R. Williams, H. Gordish-Dressman, T.J. MacDonald, N.H. Lee, and Y. Hathout Secretome signature of invasive glioblastoma multiforme J. Proteome Res. 10 2011 3149 3159
12. X.J. Min Evaluation of computational methods for secreted protein prediction in different eukaryotes J. Proteomics Bioinform. 3 2010 143 147
13. T.N. Petersen, S. Brunak, G. von Heijne, and H. Nielsen SignalP 4.0: discriminating signal peptides from transmembrane regions Nat. Methods 8 2011 785 786
14. J.D. Bendtsen, L.J. Jensen, N. Blom, G. Von Heijne, and S. Brunak Feature-based prediction of non-classical and leaderless protein secretion Protein Eng. Des. Sel. 17 2004 349 356 (Pubitemid 39093515)
15. T. Farrah, E.W. Deutsch, and G.S. Omenn A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas Mol. Cell. Proteomics 10 2011 (M110 006353)
16. S.E. Schutzer, T. Liu, and B.H. Natelson Establishing the proteome of normal human cerebrospinal fluid PLoS One 5 2010 2010 e10980
17. A. Marimuthu, R.N. O'Meally, and R. Chaerkady A comprehensive map of the human urinary proteome J. Proteome Res. 10 2011 2734 2743
18. A. Marimuthu, Y. Subbannayya, and N.A. Sahasrabuddhe SILAC-based quantitative proteomic analysis of gastric cancer secretome Proteomics Clin. Appl. 2013 10.1002/prca.201200069 (Epub ahead of print, in press)
19. C.C. Wu, C.W. Hsu, and C.D. Chen Candidate serological biomarkers for cancer identified from the secretomes of 23 cancer cell lines and the human protein atlas Mol. Cell. Proteomics 9 2010 1100 1117
20. J. Korf, K.D. Huinink, and G.A. Posthuma-Trumpie Ultraslow microdialysis and microfiltration for in-line, on-line and off-line monitoring Trends Biotechnol. 28 2010 150 158
21. E.J. Stemmy, A.S. Benton, J. Lerner, S. Alcala, S.L. Constant, and R.J. Freishtat Extracellular cyclophilin levels associate with parameters of asthma in phenotypic clusters J. Asthma 48 2011 986 993
22. H.L. Chen, H. Seol, and K.J. Brown Secretome survey of human plexiform neurofibroma derived schwann cells reveals a secreted form of the RARRES1 protein Int. J. Mol. Sci. 13 2012 9380 9399
23. J.A. Dowell, J.A. Johnson, and L. Li Identification of astrocyte secreted proteins with a combination of shotgun proteomics and bioinformatics J. Proteome Res. 8 2009 4135 4143
24. A. Slany, V.J. Haudek, and H. Zwickl Cell characterization by proteome profiling applied to primary hepatocytes and hepatocyte cell lines Hep-G2 and Hep-3B J. Proteome Res. 9 2010 6 21
25. R.W. Mahley Apolipoprotein E: cholesterol transport protein with expanding role in cell biology Science 240 1988 1988 622 630
26. J. Poirier Apolipoprotein E, in the brain and its role in Alzheimer's disease J. Psychiatry Neurosci. 21 1996 128 134 (Pubitemid 126737075)
27. A.D. Roses Apolipoprotein E, in neurology Curr. Opin. Neurol. 9 1996 265 270
28. M.E. Alonso Vilatela, M. Lopez Lopez, and P. Yescas Gomez Genetics of Alzheimer's disease Arch. Med. Res. 43 2012 622 631
29. S. Sorbi Molecular genetics of Alzheimer's disease Aging (Milano) 5 1993 417 425
30. F. Song, A. Poljak, and J. Crawford Plasma apolipoprotein levels are associated with cognitive status and decline in a community cohort of older individuals PLoS One 7 2012 e34078
31. F. Marin, G. Luquet, B. Marie, and D. Medakovic Molluscan shell proteins: primary structure, origin, and evolution Curr. Top. Dev. Biol. 80 2008 209 276
32. J.A. Voynow, S.J. Gendler, and M.C. Rose Regulation of mucin genes in chronic inflammatory airway diseases Am. J. Respir. Cell Mol. Biol. 34 2006 661 665 (Pubitemid 43825329)
33. S.M. Kreda, C.W. Davis, and M.C. Rose CFTR, mucins, and mucus obstruction in cystic fibrosis Cold Spring Harb. Perspect. Med. 2 2012 a009589
34. D. Preciado, S. Goyal, and M. Rahimi MUC5B is the predominant mucin glycoprotein in chronic otitis media fluid Pediatr. Res. 68 2010 231 236
35. K. James Complement: activation, consequences, and control Am. J. Med. Technol. 48 1982 735 742
36. D.T. Bradley, P.F. Zipfel, and A.E. Hughes Complement in age-related macular degeneration: a focus on function Eye (Lond.) 25 2011 683 693
37. K.M. Gehrs, D.H. Anderson, L.V. Johnson, and G.S. Hageman Age-related macular degeneration - emerging pathogenetic and therapeutic concepts Ann. Med. 38 2006 450 471 (Pubitemid 44767496)
38. W. Nickel Unconventional secretory routes: direct protein export across the plasma membrane of mammalian cells Traffic 6 2005 607 614 (Pubitemid 40959689)
39. V. Santosh, A. Arivazhagan, and P. Sreekanthreddy Grade-specific expression of insulin-like growth factor-binding proteins-2, -3, and -5 in astrocytomas: IGFBP-3 emerges as a strong predictor of survival in patients with newly diagnosed glioblastoma Cancer Epidemiol. Biomarkers Prev. 19 2010 1399 1408
40. H. Wang, W. Zhang, and G.N. Fuller Overexpression of IGFBP5, but not IGFBP3, correlates with the histologic grade of human diffuse glioma: a tissue microarray and immunohistochemical study Technol. Cancer Res. Treat. 5 2006 195 199 (Pubitemid 43946253)
41. B.M. Ku, Y.K. Lee, and J. Ryu CHI3L1 (YKL-40) is expressed in human gliomas and regulates the invasion, growth and survival of glioma cells Int. J. Cancer 128 2010 1316 1326
42. J.W. Law, and A.Y. Lee The role of semaphorins and their receptors in gliomas J. Signal Transduct. 2012 2012 1 14
43. L. Mou, Y. Kang, Y. Zhou, Q. Zeng, H. Song, and R. Wang Neurokinin-1 receptor directly mediates glioma cell migration by up-regulation of matrix metalloproteinase-2 (MMP-2) and membrane type 1 matrix metalloproteinase (MT1-MMP) J. Biol. Chem. 288 2013 306 318
44. B. Hu, P. Guo, and I. Bar-Joseph Neuropilin-1 promotes human glioma progression through potentiating the activity of the HGF/SF autocrine pathway Oncogene 26 2007 5577 5586 (Pubitemid 47267840)
45. S.J. Coniglio, E. Eugenin, and K. Dobrenis Microglial stimulation of glioblastoma invasion involves epidermal growth factor receptor (EGFR) and colony stimulating factor 1 receptor (CSF-1R) signaling Mol. Med. 18 2012 519 527
46. J. Wischhusen, M.A. Friese, M. Mittelbronn, R. Meyermann, and M. Weller HLA-E protects glioma cells from NKG2D-mediated immune responses in vitro: implications for immune escape in vivo J. Neuropathol. Exp. Neurol. 64 2005 523 528 (Pubitemid 40781155)
47. G. Li, Y. Xu, D. Guan, Z. Liu, and D.X. Liu HSP70 protein promotes survival of C6 and U87 glioma cells by inhibition of ATF5 degradation J. Biol. Chem. 286 2011 20251 20259
48. M. Laurent, C. Martinerie, and H. Thibout NOVH increases MMP3 expression and cell migration in glioblastoma cells via a PDGFR-alpha-dependent mechanism FASEB J. 17 2003 1919 1921
49. S. Ohba, Y. Hirose, K. Yoshida, T. Yazaki, and T. Kawase Inhibition of 90-kD heat shock protein potentiates the cytotoxicity of chemotherapeutic agents in human glioma cells J. Neurosurg. 112 2010 33 42
50. I. Tritschler, D. Gramatzki, and D. Capper Modulation of TGF-beta activity by latent TGF-beta-binding protein 1 in human malignant glioma cells Int. J. Cancer 125 2009 530 540
51. U. Naumann, W. Wick, R. Beschorner, R. Meyermann, and M. Weller Expression and functional activity of osteoprotegerin in human malignant gliomas Acta Neuropathol. 107 2004 17 22 (Pubitemid 38088270)
52. H. Fiaux, F. Popowycz, and S. Favre Functionalized pyrrolidines inhibit alpha-mannosidase activity and growth of human glioblastoma and melanoma cells J. Med. Chem. 48 2005 4237 4246 (Pubitemid 40884927)
53. J. Han, J.C. Daniel, and G.D. Pappas Expression of type VI collagen during glioblastoma cell invasion in brain tissue cultures Cancer Lett. 88 1995 127 132
54. I.B. Appelskog, O. Ammerpohl, I.G. Svechnikova, W.O. Lui, P.M. Almqvist, and T.J. Ekstrom Histone deacetylase inhibitor 4-phenylbutyrate suppresses GAPDH mRNA expression in glioma cells Int. J. Oncol. 24 2004 1419 1425
55. M. Gimenez, S.K. Marie, and S.M. Oba-Shinjo Quantitative proteomic analysis and functional studies reveal that nucleophosmin is involved in cell death in glioblastoma cell line transfected with siRNA Proteomics 12 2012 2632 2640
56. A. Ramao, M. Gimenez, and H.J. Laure Changes in the expression of proteins associated with aerobic glycolysis and cell migration are involved in tumorigenic ability of two glioma cell lines Proteome Sci. 10 2012 1 12
57. N.A. Lokker, C.M. Sullivan, S.J. Hollenbach, M.A. Israel, and N.A. Giese Platelet-derived growth factor (PDGF) autocrine signaling regulates survival and mitogenic pathways in glioblastoma cells: evidence that the novel PDGF-C and PDGF-D ligands may play a role in the development of brain tumors Cancer Res. 62 2002 3729 3735 (Pubitemid 34728854)
58. M. Sie, M. Wagemakers, G. Molema, J.J. Mooij, E.S. de Bont, and W.F. den Dunnen The angiopoietin 1/angiopoietin 2 balance as a prognostic marker in primary glioblastoma multiforme J. Neurosurg. 110 2009 147 155