Proteomics of lung physiopathology

Proteomics

Volumn 8, Issue 23-24, 2008, Pages 5053-5073

  Miller, Ingrid ^a   Eberini, Ivano ^b   Gianazza, Elisabetta ^b  

^a UNIVERSITY OF VETERINARY MEDICINE   (Austria)

^b UNIVERSITY OF MILAN   (Italy)

Author keywords

Bronchoalveolar lavage; Human; Lung; Lung cancer; Sputum

Indexed keywords

10 HYDROXYCAMPTOTHECIN; 4 (3 CHLOROANILINO) 6,7 DIMETHOXYQUINAZOLINE; AMINOPEPTIDASE P; AUTOANTIBODY; BUTYLCRESOL; FORMALDEHYDE; FRAGILE HISTIDINE TRIAD PROTEIN; FUEL; GEFITINIB; HEAVY METAL; OVALBUMIN; POLYCYCLIC HYDROCARBON; PROTEOME; TOBACCO SMOKE; TUMOR MARKER;

ADULT RESPIRATORY DISTRESS SYNDROME; ASTHMA; BODY FLUID; CANCER CLASSIFICATION; CARCINOGENESIS; CELL CULTURE; CHRONIC OBSTRUCTIVE LUNG DISEASE; CYSTIC FIBROSIS; DOWN REGULATION; EXHALED BREATH CONDENSATE; EXOSOME; EXPIRED AIR; GENE MUTATION; HEAVY METAL POISONING; HISTOLOGY; HUMAN; IMMUNOREACTIVITY; INTERSTITIAL LUNG DISEASE; LEWIS CARCINOMA; LUNG ADENOCARCINOMA; LUNG ALVEOLUS CELL; LUNG ALVEOLUS PROTEINOSIS; LUNG DISEASE; LUNG LAVAGE; LUNG NON SMALL CELL CANCER; LUNG SQUAMOUS CELL CARCINOMA; NONHUMAN; NOSE MUCUS; OXIDATIVE STRESS; PATHOPHYSIOLOGY; PLEURA EFFUSION; PREDICTOR VARIABLE; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN SECRETION; PROTEOMICS; REVIEW; RHINITIS; SALIVA ANALYSIS; SPUTUM ANALYSIS; TOXICOLOGY; UPREGULATION;

ANIMALS; BODY FLUIDS; HUMANS; LUNG; LUNG DISEASES; PROTEOMICS;

EID: 57649242767     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.200800315     Document Type: Review

References (178)

1. Eisinger, R. W., Kennel, S. J., Heterogeneity of a labeled tumor surface protein from a murine lung carcinoma demonstrated by two-dimensional electrophoresis. Cancer Res. 1981, 41, 877-881.
2. Endler, A. T., Young, D. S., Wold, L. E., Lieber, M. M., Currie, R. M., Two-dimensional electrophoresis of proteins in tumours of the lung. J. Clin. Chem. Clin. Biochem. 1986, 24, 981-992.
3. Zhukov, T. A., Johanson, R. A., Cantor, A. B., Clark, R. A., Tockman, M. S., Discovery of distinct protein profiles specific for lung tumors and pre-malignant lung lesions by SELDI mass spectrometry. Lung Cancer 2003, 40, 267-279.
4. Yin, D. S., Ge, Z. Q., Yang, W. Y., Liu, C. X., Yuan, Y. J., Inhibition of tumor metastasis in vivo by combination of paclitaxel and hyaluronic acid. Cancer Lett. 2006, 243, 71-79.
5. Chatterji, B., Borlak, J., Serum proteomics of lung adenocarcinomas induced by targeted overexpression of c-raf in alveolar epithelium identifies candidate biomarkers. Proteomics 2007, 7, 3980-3991.
6. Kerkhoff, E., Fedorov, L. M., Siefken, R., Walter, A. O. et al., Lung-targeted expression of the c-Raf-1 kinase in transgenic mice exposes a novel oncogenic character of the wild-type protein. Cell Growth Differ. 2000, 11, 185-190.
7. Kumar, R. K., Foster, P. S., Modeling allergic asthma in mice: Pitfalls and opportunities. Am. J. Respir. Cell Mol. Biol. 2002, 27, 267-272.
8. Ghafouri, B., Tagesson, C., Lindahl, M., Mapping of proteins in human saliva using two-dimensional gel electrophoresis and peptide mass fingerprinting. Proteomics 2003, 3, 1003-1015.
9. Vitorino, R., Lobo, M. J., Ferrer-Correira, A. J., Dubin, J. R. et al., Identification of human whole saliva protein components using proteomics. Proteomics 2004, 4, 1109-1115.
10. Belda, J., Leigh, R., Parameswaran, K., O'Byrne, P. M. et al., Induced sputum cell counts in healthy adults. Am. J. Respir. Crit. Care Med. 2000, 161, 475-478.
11. Kips, J. C., Inman, M. D., Jayaram, L., Bel, E. H. et al., The use of induced sputum in clinical trials. Eur. Respir. J. 2002, 37, 47s-50s.
12. Sagel, S. D., Kapsner, R., Osberg, I., Sontag, M. K., Accurso, F. J., Airway inflammation in children with cystic fibrosis and healthy children assessed by sputum induction. Am. J. Respir. Crit. Care Med. 2001, 164, 1425-1431.
13. Nicholas, B., Skipp, P., Mould, R., Rennard, S. et al., Shotgun proteomic analysis of human-induced sputum. Proteomics 2006, 6, 4390-4401.
14. Conrad, D. H., Goyette, J., Thomas, P. S., Proteomics as a method for early detection of cancer: A review of proteomics, exhaled breath condensate, and lung cancer screening. J. Gen. Intern. Med. 2008, 23, 78-84.
15. Montuschi, P., Corradi, M., Ciabattoni, G., Increased 8-isoprostane, a biomarker of oxidative stress, in exhaled condensate of asthma patients. Am. J. Crit. Care Med. 1999, 160, 216-220.
16. Scheideler, L., Manke, H. G., Schwulera, U., Inacker, O., Hammerle, H., Detection of nonvolatile macromolecules in breath. A possible diagnostic tool? Am. Rev. Respir. Dis. 1993, 148, 778-784.
17. Griese, M., Noss, J., von Bredow, C., Protein pattern of exhaled breath condensate and saliva. Proteomics 2002, 2, 690-696.
18. Gianazza, E., Allegra, L., Bucchioni, E., Eberini, I. et al., Increased keratin content detected by proteomic analysis of exhaled breath condensate from healthy persons who smoke. Am. J. Med. 2004, 117, 51-54.
19. Wattiez, R., Falmagne, P., Proteomics of bronchoalveolar lavage fluid. J. Chromatogr. B: Analyt. Technol. Biomed. Life Sci. 2005, 815, 169-178.
20. Plymoth, A., Lofdahl, C. G., Ekberg-Jansson, A., Dahlback, M. et al., Human bronchoalveolar lavage: Biofluid analysis with special emphasis on sample preparation. Proteomics 2003, 3, 962-972.
21. Lindahl, M., Stahlbom, B., Tagesson, C., Two-dimensional gel electrophoresis of nasal and bronchoalveolar lavage fluids after occupational exposure. Electrophoresis 1995, 16, 1199-1204.
22. Lindahl, M., Ståhlbom, B., Svartz, J., Tagesson, C., Protein pattern of human nasal and bronchoalveolar lavage fluids analyzed by two-dimensional gel electrophoresis. Electrophoresis 1998, 19, 3222-3229.
23. Lindahl, M., Svartz, J., Tagesson, C., Demonstration of different forms of the anti-inflammatory proteins lipocortin-1 and Clara cell protein-16 in human nasal and bronchoalveolar lavage fluids. Electrophoresis 1999, 20, 881-890.
24. Lindahl, M., Ståhlbom, B., Tagesson, C., Newly identified proteins in human nasal and bronchoalveolar lavage fluids: Potential biomedical and clinical applications. Electrophoresis 1999, 20, 3670-3676.
25. Wattiez, R., Hermans, C., Bernard, A., Lesur, O., Falmagne, P., Human bronchoalveolar lavage fluid: Two-dimensional gel electrophoresis, amino acid microsequencing and identification of major proteins. Electrophoresis 1999, 20, 1634-1645.
26. Noel-Georis, I., Bernard, A., Falmagne, P., Wattiez, R., Database of bronchoalveolar lavage fluid proteins. J. Chromatogr. B: Analyt. Technol. Biomed. Life Sci. 2002, 771, 221-236.
27. Magi, B., Bargagli, E., Bini, L., Rottoli, P., Proteome analysis of bronchoalveolar lavage in lung diseases. Proteomics 2006, 6, 6354-6369.
28. Lindahl, M., Ståhlbom, B., Tagesson, C., Identification of a new airway irritation marker, palate lung nasal epitelial clone protein, in human nasal lavage fluid with two-dimensional electrophoresis and matrix-assisted laser desorption/ ionization-time of flight. Electrophoresis 2001, 22, 1795-1800.
29. Otto-Verberne, C. J., Ten Have-Opbroek, A. A., De Vries, E. C., Expression of the major surfactant-associated protein, SP-A, in type II cells of human lung before 20 weeks of gestation. Eur. J. Cell Biol. 1990, 53, 13-19.
30. Beyea, J. A., Sawicki, G., Olson, D. M., List, E. et al., Growth hormone (GH) receptor knockout mice reveal actions of GH in lung development. Proteomics 2006, 6, 341-348.
31. Predic, J., Soskic, V., Bradley, D., Godovac-Zimmermann, J., Monitoring of gene expression by functional proteomics: Response of human lung fibroblast cells to stimulation by endothelin-1. Biochemistry 2002, 41, 1070-1078.
32. Stannard, C., Soskic, V., Godovac-Zimmermann, J., Rapid changes in the phosphoproteome show diverse cellular responses following stimulation of human lung fibroblasts with endothelin-1. Biochemistry 2003, 42, 13919-13928.
33. Luo, Q., Nieves, E., Kzhyshkowska, J., Angeletti, R. H., Endogenous transforming growth factor-beta receptor-mediated Smad signaling complexes analyzed by mass spectrometry. Mol. Cell. Proteomics 2006, 5, 1245-1260.
34. Kanamoto, T., Hellman, U., Heldin, C. H., Souchelnytskyi, S., Functional proteomics of transforming growth factor-beta1-stimulated Mv1Lu epithelial cells: Rad51 as a target of TGFbeta1-dependent regulation of DNA repair. EMBO J. 2002, 21, 1219-1230.
35. Keshamouni, V. G., Michailidis, G., Grasso, C. S., Anthwal, S. et al., Differential protein expression profiling by iTRAQ-2DLC-MS/MS of lung cancer cells undergoing epithelial-mesenchymal transition reveals a migratory/invasive phenotype. J. Proteome Res. 2006, 5, 1143-1154.
36. Bunn, P. A., Jr., Molecular biology and early diagnosis in lung cancer. Lung Cancer 2002, 38, S5-S8.
37. Ferlay, J., Autier, P., Boniol, M., Heanue, M. et al., Estimates of the cancer incidence and mortality in Europe in 2006. Ann. Oncol. 2007, 18, 581-592.
38. Etzioni, R., Urban, N., Ramsey, S., McIntosh, M. et al., The case for early detection. Nat. Rev. Cancer 2003, 3, 243-252.
39. Garber, M. E., Troyanskaya, O. G., Schluens, K., Petersen, S. et al., Diversity of gene expression in adenocarcinoma of the lung. Proc. Natl. Acad. Sci. USA 2001, 98, 13784-13789.
40. Bhattacharjee, A., Richards, W. G., Staunton, J., Li, C. et al., Classification of human lung carcinomas by mRNA expression profiling reveals distinct adenocarcinoma subclasses. Proc. Natl. Acad. Sci. USA 2001, 98, 13790-13795.
41. Seike, M., Kondo, T., Fujii, K., Yamada, T. et al., Proteomic signature of human cancer cells. Proteomics 2004, 4, 2776-2788.
42. Seike, M., Kondo, T., Fujii, K., Okano, T. et al., Proteomic signatures for histological types of lung cancer. Proteomics 2005, 5, 2939-2948.
43. Bloom, G. C., Eschrich, S., Zhou, J. X., Coppola, D., Yeatman, T. J., Elucidation of a protein signature discriminating six common types of adenocarcinoma. Int. J. Cancer 2007, 120, 769-775.
44. Yanagisawa, K., Shyr, Y., Xu, B. J., Massion, P. P. et al., Proteomic patterns of tumour subsets in non-small-cell lung cancer. Lancet 2003, 362, 433-439.
45. Li, L. S., Kim, H., Rhee, H., Kim, S. H. et al., Proteomic analysis distinguishes basaloid carcinoma as a distinct subtype of nonsmall cell lung carcinoma. Proteomics 2004, 4, 3394-3400.
46. Rahman, S. M., Shyr, Y., Yildiz, P. B., Gonzalez, A. L. et al., Proteomic patterns of preinvasive bronchial lesions. Am. J. Respir. Crit. Care Med. 2005, 172, 1556-1562.
47. Shen, J., Behrens, C., Wistuba, I. I., Feng, L. et al., Identification and validation of differences in protein levels in normal, premalignant, and malignant lung cells and tissues using high-throughput Western Array and immunohistochemistry. Cancer Res. 2006, 66, 11194-11206.
48. Park, J. H., Kim, Y. S., Lee, H. L., Shim, J. Y. et al., Expression of peroxiredoxin and thioredoxin in human lung cancer and paired normal lung. Respirology 2006, 11, 269-275.
49. Csiki, I., Yanagisawa, K., Haruki, N., Nadaf, S. et al., Thioredoxin-1 modulates transcription of cyclooxygenase-2 via hypoxia-inducible factor-1alpha in non-small cell lung cancer. Cancer Res. 2006, 66, 143-150.
50. Li, C., Chen, Z., Xiao, Z., Wu, X. et al., Comparative proteomics analysis of human lung squamous carcinoma. Biochem. Biophys. Res. Commun. 2003, 309, 253-260.
51. Li, C., Zhan, X., Li, M., Wu, X. et al., Proteomic comparison of two-dimensional gel electrophoresis profiles from human lung squamous carcinoma and normal bronchial epithelial tissues. Genomics Proteomics Bioinformatics 2003, 1, 58-67.
52. Li, C., Xiao, Z., Chen, Z., Zhang, X. et al., Proteome analysis of human lung squamous carcinoma. Proteomics 2006, 6, 547-558.
53. Wu, X., Xiao, Z., Chen, Z., Li, C. et al., Differential analysis of two-dimension gel electrophoresis profiles from the normal-metaplasia- dysplasia-carcinoma tissue of human bronchial epithelium. Pathol. Int. 2004, 54, 765-773.
54. Chen, G., Gharib, T. G., Huang, C. C., Thomas, D. G. et al., Proteomic analysis of lung adenocarcinoma: Identification of a highly expressed set of proteins in tumors. Clin. Cancer Res. 2002, 8, 2298-2305.
55. Gharib, T. G., Chen, G., Huang, C. C., Misek, D. E. et al., Genomic and proteomic analyses of vascular endothelial growth factor and insulin-like growth factor-binding protein 3 in lung adenocarcinomas. Clin. Lung Cancer 2004, 5, 307-312.
56. Chen, G., Gharib, T. G., Wang, H., Huang, C. C. et al., Protein profiles associated with survival in lung adenocarcinoma. Proc. Natl. Acad. Sci. USA 2003, 100, 13537-13542.
57. Chen, G., Gharib, T. G., Thomas, D. G., Huang, C. C. et al., Proteomic analysis of eIF-5A in lung adenocarcinomas. Proteomics 2003, 3, 496-504.
58. Gharib, T. G., Chen, G., Wang, H., Huang, C. C. et al., Proteomic analysis of cytokeratin isoforms uncovers association with survival in lung adenocarcinoma. Neoplasia 2002, 4, 440-448.
59. Ying, W., Zhang, K., Qian, X., Xie, L. et al., Proteome analysis on an early transformed human bronchial epithelial cell line, BEP2D, after alpha-particle irradiation. Proteomics 2003, 3, 64-72.
60. Peebles, K. A., Duncan, M. W., Ruch, R. J., Malkinson, A. M., Proteomic analysis of a neoplastic mouse lung epithelial cell line whose tumorigenicity has been abrogated by transfection with the gap junction structural gene for connexin 43, Gja1. Carcinogenesis 2003, 24, 651-657.
61. Chang, J. W., Jeon, H. B., Lee, J. H., Yoo, J. S. et al., Augmented expression of peroxiredoxin I in lung cancer. Biochem. Biophys. Res. Commun. 2001, 289, 507-512.
62. Shin, B. K., Wang, H., Yim, A. M., Le Naour, F. et al., Global profiling of the cell surface proteome of cancer cells uncovers an abundance of proteins with chaperone function. J. Biol. Chem. 2003, 278, 7607-7616.
63. Zhou, Z. D., Bao, L., Liu, D. G., Li, M. Q. et al., Low content of protein S29 in ribosomes of human lung cancer cell line a549: Detected by two-dimensional electrophoresis. Protein Pept. Lett. 2003, 10, 91-97.
64. Tian, T., Hao, J., Xu, A., Hao, J. et al., Determination of metastasis-associated proteins in non-small cell lung cancer by comparative proteomic analysis. Cancer Sci. 2007, 98, 1265-1274.
65. Zhang, H., Li, N., Chen, Y., Huang, L. Y. et al., Protein profile of human lung squamous carcinoma cell line NCI-H226. Biomed. Environ. Sci. 2007, 20, 24-32.
66. Zhang, H., Wang, Y., Chen, Y., Sun, S. et al., Identification and validation of S100A7 associated with lung squamous cell carcinoma metastasis to brain. Lung Cancer 2007, 57, 37-45.
67. Rutters, H., Zurbig, P., Halter, R., Borlak, J., Towards a lung adenocarcinoma proteome map: Studies with SP-C/c-raf transgenic mice. Proteomics 2006, 6, 3127-3137.
68. Finn, O. J., Immune response as a biomarker for cancer detection and a lot more. N. Engl. J. Med. 2005, 353, 1288-1290.
69. Brichory, F., Beer, D., Le Naour, F., Giordano, T., Hanash, S., Proteomics-based identification of protein gene product 9.5 as a tumor antigen that induces a humoral immune response in lung cancer. Cancer Res. 2001, 61, 7908-7912.
70. Brichory, F. M., Misek, D. E., Yim, A. M., Krause, M. C. et al., An immune response manifested by the common occurrence of annexins I and II autoantibodies and high circulating levels of IL-6 in lung cancer. Proc. Natl. Acad. Sci. USA 2001, 98, 9824-9829.
71. Nakanishi, T., Takeuchi, T., Ueda, K., Murao, H., Shimizu, A., Detection of eight antibodies in cancer patients' sera against proteins derived from the adenocarcinoma A549 cell line using proteomics-based analysis. J. Chromatogr. B: Analyt. Technol. Biomed. Life Sci. 2006, 838, 15-20.
72. He, P., Naka, T., Serada, S., Fujimoto, M. et al., Proteomics-based identification of alpha-enolase as a tumor antigen in non-small lung cancer. Cancer Sci. 2007, 98, 1234-1240.
73. Yang, F., Xiao, Z. Q., Zhang, X. Z., Li, C. et al., Identification of tumor antigens in human lung squamous carcinoma by serological proteome analysis. J. Proteome Res. 2007, 6, 751-758.
74. Madoz-Gurpide, J., Kuick, R., Wang, H., Misek, D. E., Hanash, S. M., Integral protein microarrays for the identification of lung cancer antigens in sera that induce a humoral immune response. Mol. Cell. Proteomics 2008, 7, 268-281.
75. Huang, L. J., Chen, S. X., Huang, Y., Luo, W. J. et al., Proteomics-based identification of secreted protein dihydrodiol dehydrogenase as a novel serum markers of non-small cell lung cancer. Lung Cancer 2006, 54, 87-94.
76. Lou, X., Xiao, T., Zhao, K., Wang, H. et al., Cathepsin D is secreted from M-BE cells: Its potential role as a biomarker of lung cancer. J. Proteome Res. 2007, 6, 1083-1092.
77. Tyan, Y. C., Wu, H. Y., Su, W. C., Chen, P. W., Liao, P. C., Proteomic analysis of human pleural effusion. Proteomics 2005, 5, 1062-1074.
78. Nilsson, C. L., Puchades, M., Westman, A., Blennow, K., Davidsson, P., Identification of proteins in a human pleural exudate using two-dimensional preparative liquid-phase electrophoresis and matrix-assisted laser desorption/ionization mass spectrometry. Electrophoresis 1999, 20, 860-865.
79. Tyan, Y. C., Wu, H. Y., Lai, W. W., Su, W. C., Liao, P. C., Proteomic profiling of human pleural effusion using two-dimensional nano liquid chromatography tandem mass spectrometry. J. Proteome Res. 2005, 4, 1274-1286.
80. Hsieh, W. Y., Chen, M. W., Ho, H. T., You, T. M., Lu, Y. T., Identification of differentially expressed proteins in human malignant pleural effusions. Eur. Respir. J. 2006, 28, 1178-1185.
81. Hegmans, J. P., Bard, M. P., Hemmes, A., Luider, T. M. et al., Proteomic analysis of exosomes secreted by human mesothelioma cells. Am. J. Pathol. 2004, 164, 1807-1815.
82. Bard, M. P., Hegmans, J. P., Hemmes, A., Luider, T. M. et al., Proteomic analysis of exosomes isolated from human malignant pleural effusions. Am. J. Respir. Cell Mol. Biol. 2004, 31, 114-121.
83. Vejda, S., Posovszky, C., Zelzer, S., Peter, B. et al., Plasma from cancer patients featuring a characteristic protein composition mediates protection against apoptosis. Mol. Cell. Proteomics 2002, 1, 387-393.
84. Bharti, A., Ma, P. C., Maulik, G., Singh, R. et al., Haptoglobin alpha-subunit and hepatocyte growth factor can potentially serve as serum tumor biomarkers in small cell lung cancer. Anticancer Res. 2004, 24, 1031-1038.
85. Maciel, C. M., Junqueira, M., Paschoal, M. E., Kawamura, M. T. et al., Differential proteomic serum pattern of low molecular weight proteins expressed by adenocarcinoma lung cancer patients. J. Exp. Ther. Oncol. 2005, 5, 31-38.
86. Yildiz, P. B., Shyr, Y., Rahman, J. S., Wardwell, N. R. et al., Diagnostic accuracy of MALDI mass spectrometric analysis of unfractionated serum in lung cancer. J. Thorac. Oncol. 2007, 2, 893-901.
87. Fujii, K., Kondo, T., Yokoo, H., Yamada, T. et al., Proteomic study of human hepatocellular carcinoma using two-dimensional difference gel electrophoresis with saturation cysteine dye. Proteomics 2005, 5, 1411-1422.
88. Heo, S. H., Lee, S. J., Ryoo, H. M., Park, J. Y., Cho, J. Y., Identification of putative serum glycoprotein biomarkers for human lung adenocarcinoma by multilectin affinity chromatography and LC-MS/MS. Proteomics 2007, 7, 4292-4302.
89. Okano, T., Kondo, T., Kakisaka, T., Fujii, K. et al., Plasma proteomics of lung cancer by a linkage of multi-dimensional liquid chromatography and two-dimensional difference gel electrophoresis. Proteomics 2006, 6, 3938-3948.
90. Ueda, K., Katagiri, T., Shimada, T., Irie, S. et al., Comparative profiling of serum glycoproteome by sequential purification of glycoproteins and 2-nitrobenzensulfenyl (NBS) stable isotope labeling: A new approach for the novel biomarker discovery for cancer. J. Proteome Res. 2007, 6, 3475-3483.
91. Kap-Soon, N., Do-Youn, L., Hak, C. J., Joo, W. A. et al., Protein biomarkers in the plasma of workers occupationally exposed to polycyclic aromatic hydrocarbons. Proteomics 2004, 4, 3505-3513.
92. Xiao, X. Y., Tang, Y., Wei, X. P., He, D. C., A preliminary analysis of non-small cell lung cancer biomarkers in serum. Biomed. Environ. Sci. 2003, 16, 140-148.
93. Yang, S. Y., Xiao, X. Y., Zhang, W. G., Zhang, L. J. et al., Application of serum SELDI proteomic patterns in diagnosis of lung cancer. BMC Cancer 2005, 5, 83.
94. Xiao, X., Liu, D., Tang, Y., Guo, F. et al., Development of proteomic patterns for detecting lung cancer. Dis. Markers 2003-2004, 19, 33-39.
95. Ali, I. U., Xiao, Z., Malone, W., Smith, M. et al., Plasma proteomic profiling: Search for lung cancer diagnostic and early detection markers. Oncol. Rep. 2006, 15, 1367-1372.
96. Liu, L., Liu, J., Dai, S., Wang, X. et al., Reduced transthyretin expression in sera of lung cancer. Cancer Sci. 2007, 98, 1617-1624.
97. Cho, W. C., Yip, T. T., Yip, C., Yip, V. et al., Identification of serum amyloid a protein as a potentially useful biomarker to monitor relapse of nasopharyngeal cancer by serum proteomic profiling. Clin. Cancer Res. 2004, 10, 43-52.
98. Patz, E. F., Jr., Campa, M. J., Gottlin, E. B., Kusmartseva, I. et al., Panel of serum biomarkers for the diagnosis of lung cancer. J. Clin. Oncol. 2007, 25, 5578-5583.
99. Taguchi, F., Solomon, B., Gregorc, V., Roder, H. et al., Mass spectrometry to classify non-small-cell lung cancer patients for clinical outcome after treatment with epidermal growth factor receptor tyrosine kinase inhibitors: A multicohort cross-institutional study. J. Natl. Cancer Inst. 2007, 99, 838-846.
100. O'Byrne, K. J., Danson, S., Dunlop, D., Botwood, N. et al., Combination therapy with gefitinib and rofecoxib in patients with platinum-pretreated relapsed nonsmall-cell lung cancer. J. Clin. Oncol. 2007, 25, 3266-3273.
101. Semba, S., Huebner, K., Protein expression profiling identifies cyclophilin A as a molecular target in Fhit-mediated tumor suppression. Mol. Cancer Res. 2006, 4, 529-538.
102. Oh, P., Li, Y., Yu, J., Durr, E. et al., Subtractive proteomic mapping of the endothelial surface in lung and solid tumours for tissue-specific therapy. Nature 2004, 429, 629-635.
103. Wang, Y., Dai, Z., Sadee, W., Hancock, W. S., A pharmacoproteomics study of the cancer cell line EKVX using capillary-LC/MS/MS. Mol. Pharm. 2006, 3, 566-578.
104. Eberini, I., Agnello, D., Miller, I., Villa, P. et al., Proteins of rat serum: V. Adjuvant arthritis and its modulation by nonsteroidal antiinflammatory drugs. Electrophoresis 2000, 21, 2170-2179.
105. Okano, T., Kondo, T., Fujii, K., Nishimura, T. et al., Proteomic signature corresponding to the response to gefitinib (Iressa, ZD1839), an epidermal growth factor receptor tyrosine kinase inhibitor in lung adenocarcinoma. Clin. Cancer Res. 2007, 13, 799-805.
106. Houtman, R., Krijgsveld, J., Kool, M., Romijn, E. P. et al., Lung proteome alterations in a mouse model for non-allergic asthma. Proteomics 2003, 3, 2008-2018.
107. Ghosh, S., Janocha, A. J., Aronica, M. A., Swaidani, S. et al., Nitrotyrosine proteome survey in asthma identifies oxidative mechanism of catalase inactivation. J. Immunol. 2006, 176, 5587-5597.
108. Malmstrom, J., Westergren-Thorsson, G., Marko-Varga, G., A proteomic approach to mimic fibrosis disease evolvement by an in vitro cell line. Electrophoresis 2001, 22, 1776-1784.
109. Malmstrom, J., Tufvesson, E., Lofdahl, C. G., Hansson, L. et al., Activation of platelet-derived growth factor pathway in human asthmatic pulmonary-derived mesenchymal cells. Electrophoresis 2003, 24, 276-285.
110. Wu, J., Kobayashi, M., Sousa, E. A., Liu, W. et al., Differential proteomic analysis of bronchoalveolar lavage fluid in asthmatics following segmental antigen challenge. Mol. Cell. Proteomics 2005, 4, 1251-1264.
111. Gevaert, K., Van Damme, P., Martens, L., Vandekerckhove, J., Diagonal reverse-phase chromatography applications in peptide-centric proteomics: Ahead of catalogue-omics? Anal. Biochem. 2005, 345, 18-29.
112. Casado, B., Pannell, L. K., Iadarola, P., Baraniuk, J. N., Identification of human nasal mucous proteins using proteomics. Proteomics 2005, 5, 2949-2959.
113. Ghafouri, B., Irander, K., Lindbom, J., Tagesson, C., Lindahl, M., Comparative proteomics of nasal fluid in seasonal allergic rhinitis. J. Proteome Res. 2006, 5, 330-338.
114. Bons, J. A., Drent, M., Bouwman, F. G., Mariman, E. C. et al., Potential biomarkers for diagnosis of sarcoidosis using proteomics in serum. Respir. Med. 2007, 101, 1687-1695.
115. Wattiez, R., Hermans, C., Cruyt, C., Bernard, A., Falmagne, P., Human bronchoalveolar lavage fluid protein two-dimensional database: Study of interstitial lung disease. Electrophoresis 2000, 21, 2703-2712.
116. Rottoli, P., Magi, B., Perari, M. G., Liberatori, S. et al., Cytokine profile and proteome analysis in bronchoalveolar lavage of patients with sarcoidosis, pulmonary fibrosis associated with systemic sclerosis and idiopathic pulmonary fibrosis. Proteomics 2005, 5, 1423-1430.
117. Magi, B., Bini, L., Perari, M. G., Fossi, A. et al., Bronchoalveolar lavage fluid protein composition in patients with sarcoidosis and idiopathic pulmonary fibrosis: A two-dimensional electrophoretic study. Electrophoresis 2002, 23, 3434-3444.
118. Silva, E., Bourin, S., Sabounchi-Schutt, F., Laurin, Y. et al., A quantitative proteomic analysis of soluble bronchoalveolar fluid proteins from patients with sarcoidosis and chronic beryllium disease. Sarcoidosis Vasc. Diffuse Lung Dis. 2007, 24, 24-32.
119. Sabounchi-Schutt, F., Astrom, J., Hellman, U., Eklund, A., Grunewald, J., Changes in bronchoalveolar lavage fluid proteins in sarcoidosis: A proteomics approach. Eur. Respir. J. 2003, 21, 414-420.
120. He, C., Proteomic analysis of human bronchoalveolar lavage fluid: Expression profiling of surfactant-associated protein A isomers derived from human pulmonary alveolar proteinosis using immunoaffinity detection. Proteomics 2003, 3, 87-94.
121. Bai, Y., Galetskiy, D., Damoc, E., Paschen, C. et al., High resolution mass spectrometric alveolar proteomics: Identification of surfactant protein SP-A and SP-D modifications in proteinosis and cystic fibrosis patients. Proteomics 2004, 4, 2300-2309.
122. Bai, Y., Galetskiy, D., Damoc, E., Ripper, J. et al., Lung alveolar proteomics of bronchoalveolar lavage from a pulmonary alveolar proteinosis patient using high-resolution FTICR mass spectrometry. Anal. Bioanal. Chem. 2007, 389, 1075-1085.
123. de Torre, C., Ying, S. X., Munson, P. J., Meduri, G. U., Suffredini, A. F., Proteomic analysis of inflammatory biomarkers in bronchoalveolar lavage. Proteomics 2006, 6, 3949-3957.
124. Schnapp, L. M., Donohoe, S., Chen, J., Sunde, D. A. et al., Mining the acute respiratory distress syndrome proteome: Identification of the insulin-like growth factor (IGF)/IGF-binding protein-3 pathway in acute lung injury. Am. J. Pathol. 2006, 169, 86-95.
125. Sepper, R., Prikk, K., Proteomics: Is it an approach to understand the progression of chronic lung disorders? J. Proteome Res. 2004, 3, 277-281.
126. Gessner, C., Dihazi, H., Brettschneider, S., Hammerschmidt, S. et al., Presence of cytokeratins in exhaled breath condensate of mechanical ventilated patients. Respir. Med. 2008, 102, 299-306.
127. Pollard, H. B., Ji, X. D., Jozwik, C., Jacobowitz, D. M., High abundance protein profiling of cystic fibrosis lung epithelial cells. Proteomics 2005, 5, 2210-2226.
128. Roxo-Rosa, M., da Costa, G., Luider, T. M., Scholte, B. J. et al., Proteomic analysis of nasal cells from cystic fibrosis patients and non-cystic fibrosis control individuals: Search for novel biomarkers of cystic fibrosis lung disease. Proteomics 2006, 6, 2314-2325.
129. Bensalem, N., Ventura, A. P., Vallee, B., Lipecka, J. et al., Down-regulation of the anti-inflammatory protein annexin A1 in cystic fibrosis knock-out mice and patients. Mol. Cell. Proteomics 2005, 4, 1591-1601.
130. Brouillard, F., Bensalem, N., Hinzpeter, A., Tondelier, D. et al., Blue native/SDS-PAGE analysis reveals reduced expression of the mClCA3 protein in cystic fibrosis knockout mice. Mol. Cell. Proteomics 2005, 4, 1762-1775.
131. Pollard, H. B., Eidelman, O., Jozwik, C., Huang, W. et al., De novo biosynthetic profiling of high abundance proteins in cystic fibrosis lung epithelial cells. Mol. Cell. Proteomics 2006, 5, 1628-1637.
132. Sloane, A. J., Lindner, R. A., Prasad, S. S., Sebastian, L. T. et al., Proteomic analysis of sputum from adults and children with cystic fibrosis and from control subjects. Am. J. Respir. Crit. Care Med. 2005, 172, 1416-1426.
133. Pedersen, S. K., Sloane, A. J., Prasad, S. S., Sebastian, L. T. et al., An immunoproteomic approach for identification of clinical biomarkers for monitoring disease: Application to cystic fibrosis. Mol. Cell. Proteomics 2005, 4, 1052-1060.
134. Griese, M., von Bredow, C., Birrer, P., Reduced proteolysis of surfactant protein A and changes of the bronchoalveolar lavage fluid proteome by inhaled a1-protease inhibitor in cystic fibrosis. Electrophoresis 2001, 22, 165-171.
135. Srivastava, M., Eidelman, O., Jozwik, C., Paweletz, C. et al., Serum proteomic signature for cystic fibrosis using an antibodymicroarray platform. Mol. Genet. Metab. 2006, 87, 303-310.
136. Ren, Y., He, Q. Y., Fan, J., Jones, B. et al., The use of proteomics in the discovery of serum biomarkers from patients with severe acute respiratory syndrome. Proteomics 2004, 4, 3477-3484.
137. Yip, T. T., Chan, J. W., Cho, W. C., Yip, T. T. et al., Protein chip array profiling analysis in patients with severe acute respiratory syndrome identified serum amyloid a protein as a biomarker potentially useful in monitoring the extent of pneumonia. Clin. Chem. 2005, 51, 47-55.
138. Kang, X., Xu, Y., Wu, X., Liang, Y. et al., Proteomic fingerprints for potential application to early diagnosis of severe acute respiratory syndrome. Clin. Chem. 2005, 51, 56-64.
139. Agranoff, D., Fernandez-Reyes, D., Papadopoulos, M. C., Rojas, S. A. et al., Identification of diagnostic markers for tuberculosis by proteomic fingerprinting of serum. Lancet 2006, 368, 1012-1021.
140. Mazzulli, T., Low, D. E., Poutanen, S. M., Proteomics and severe acute respiratory syndrome (SARS): Emerging technology meets emerging pathogen. Clin. Chem. 2005, 51, 6-7.
141. White, M. Y., Gundry, R. L., Cordwell, S. J., When does a fingerprint constitute a diagnostic? Lancet 2006, 368, 971-973.
142. Neumann, M., von Bredow, C., Ratjen, F., Griese, M., Bronchoalveolar lavage protein patterns in children with malignancies, immunosuppression, fever and pulmonary infiltrates. Proteomics 2002, 2, 683-689.
143. Casado, B., Pannell, L. K., Viglio, S., Iadarola, P., Baraniuk, J. N., Analysis of the sinusitis nasal lavage fluid proteome using capillary liquid chromatography interfaced to electrospray ionization-quadrupole time of flight- tandem mass spectrometry. Electrophoresis 2004, 25, 1386-1393.
144. Andrew, A. S., Warren, A. J., Barchowsky, A., Temple, K. A. et al., Genomic and proteomic profiling of responses to toxic metals in human lung cells. Environ. Health Perspect. 2003, 111, 825-835.
145. He, Q. Y., Yip, T. T., Li, M., Chiu, J. F., Proteomic analyses of arsenic-induced cell transformation with SELDI-TOF ProteinChip technology. J. Cell. Biochem. 2003, 88, 1-8.
146. Lau, A. T., He, Q. Y., Chiu, J. F., A proteome analysis of the arsenite response in cultured lung cells: Evidence for in vitro oxidative stress-induced apoptosis. Biochem. J. 2004, 382, 641-650.
147. Izzotti, A., Bagnasco, M., Cartiglia, C., Longobardi, M., De Flora, S., Proteomic analysis as related to transcriptome data in the lung of chromium(VI)-treated rats. Int. J. Oncol. 2004, 24, 1513-1522.
148. Lantz, R. C., Lynch, B. J., Boitano, S., Poplin, G. S. et al., Pulmonary biomarkers based on alterations in protein expression after exposure to arsenic. Environ. Health Perspect. 2007, 115, 586-591.
149. Malard, V., Prat, O., Darrouzet, E., Berenguer, F. et al., Proteomic analysis of the response of human lung cells to uranium. Proteomics 2005, 5, 4568-4580.
150. Lau, A. T., Chiu, J. F., The possible role of cytokeratin 8 in cadmium-induced adaptation and carcinogenesis. Cancer Res. 2007, 67, 2107-2113.
151. Drake, M. G., Witzmann, F. A., Hyde, J., Witten, M. L., JP-8 jet fuel exposure alters protein expression in the lung. Toxicology 2003, 191, 199-210.
152. Witzmann, F. A., Bauer, M. D., Fieno, A. M., Grant, R. A. et al., Proteomic analysis of simulated occupational jet fuel exposure in the lung. Electrophoresis 1999, 20, 3659-3669.
153. Xiao, G. G., Wang, M., Li, N., Loo, J. A., Nel, A. E., Use of proteomics to demonstrate a hierarchical oxidative stress response to diesel exhaust particle chemicals in a macrophage cell line. J. Biol. Chem. 2003, 278, 50781-50790.
154. Isbell, M. A., Morin, D., Boland, B., Buckpitt, A. et al., Identification of proteins adducted by reactive naphthalene metabolites in vitro. Proteomics 2005, 5, 4197-4204.
155. Lin, C. Y., Isbell, M. A., Morin, D., Boland, B. C. et al., Characterization of a structurally intact in situ lung model and comparison of naphthalene protein adducts generated in this model vs lung microsomes. Chem. Res. Toxicol. 2005, 18, 802-813.
156. Lin, C. Y., Boland, B. C., Lee, Y. J., Salemi, M. R. et al., Identification of proteins adducted by reactive metabolites of naphthalene and 1-nitronaphthalene in dissected airways of rhesus macaques. Proteomics 2006, 6, 972-982.
157. Wheelock, A. M., Boland, B. C., Isbell, M., Morin, D. et al., In vivo effects of ozone exposure on protein adduct formation by 1-nitronaphthalene in rat lung. Am. J. Respir. Cell Mol. Biol. 2005, 33, 130-137.
158. Yang, Y. H., Xi, Z. G., Chao, F. H., Yang, D. F., Effects of formaldehyde inhalation on lung of rats. Biomed. Environ. Sci. 2005, 18, 164-168.
159. Meier, B. W., Gomez, J. D., Zhou, A., Thompson, J. A., Immunochemical and proteomic analysis of covalent adducts formed by quinone methide tumor promoters in mouse lung epithelial cell lines. Chem. Res. Toxicol. 2005, 18, 1575-1585.
160. Meier, B. W., Gomez, J. D., Kirichenko, O. V., Thompson, J. A., Mechanistic basis for inflammation and tumor promotion in lungs of 2,6-di-tert-butyl-4-methylphenol-treated mice: Electrophilic metabolites alkylate and inactivate antioxidant enzymes. Chem. Res. Toxicol. 2007, 20, 199-207.
161. Starosta, V., Rietschel, E., Paul, K., Baumann, U., Griese, M., Oxidative changes of bronchoalveolar proteins in cystic fibrosis. Chest 2006, 129, 431-437.
162. Rottoli, P., Magi, B., Cianti, R., Bargagli, E. et al., Carbonylated proteins in bronchoalveolar lavage of patients with sarcoidosis, pulmonary fibrosis associated with systemic sclerosis and idiopathic pulmonary fibrosis. Proteomics 2005, 5, 2612-2618.
163. Ovechkin, A. V., Lominadze, D., Sedoris, K. C., Robinson, T. W. et al., Lung ischemia-reperfusion injury: Implications of oxidative stress and platelet-arteriolar wall interactions. Arch. Physiol. Biochem. 2007, 113, 1-12.
164. Reddy, S. P., Hassoun, P. M., Brower, R., Redox imbalance and ventilator-induced lung injury. Antioxid. Redox Signal. 2007, 9, 2003-2012.
165. Guo, R. F., Ward, P. A., Role of oxidants in lung injury during sepsis. Antioxid. Redox Signal. 2007, 9, 1991-2002.
166. Schremmer, B., Manevich, Y., Feinstein, S. I., Fisher, A. B., Peroxiredoxins in the lung with emphasis on peroxiredoxin VI. Subcell. Biochem. 2007, 44, 317-344.
167. Jia, L., Xu, M., Zhen, W., Shen, X. et al., Novel anti-oxidative role of calreticulin in protecting A549 human type II alveolar epithelial cells against hypoxic injury. Am. J. Physiol. Cell Physiol. 2008, 294, C47-C55.
168. Izzotti, A., Bagnasco, M., Cartiglia, C., Longobardi, M. et al., Chemoprevention of genome, transcriptome, and proteome alterations induced by cigarette smoke in rat lung. Eur. J. Cancer 2005, 41, 1864-1874.
169. Das, I., Raised C-reactive protein levels in serum from smokers. Clin. Chim. Acta 1985, 153, 9-13.
170. Zevin, S., Saunders, S., Gourlay, S. G., Jacob, P., Benowitz, N. L., Cardiovascular effects of carbon monoxide and cigarette smoking. J. Am. Coll. Cardiol. 2001, 38, 1633-1638.
171. Craig, W. Y., Palomaki, G. E., Haddow, J. E., Cigarette smoking and serum lipid and lipoprotein concentrations: An analysis of published data. BMJ 1989, 298, 784-788.
172. Shima, M., Adachi, M., Effects of environmental tobacco smoke on serum levels of acute phase proteins in schoolchildren. Prev. Med. 1996, 25, 617-624.
173. Merkel, D., Rist, W., Seither, P., Weith, A., Lenter, M. C., Proteomic study of human bronchoalveolar lavage fluids from smokers with chronic obstructive pulmonary disease by combining surface-enhanced laser desorption/ionization-mass spectrometry profiling with mass spectrometric protein identification. Proteomics 2005, 5, 2972-2980.
174. Ghafouri, B., Kihlstrom, E., Stahlbom, B., Tagesson, C., Lindahl, M., PLUNC (palate, lung and nasal epithelial clone) proteins in human nasal lavage fluid. Biochem. Soc. Trans. 2003, 31, 810-814.
175. Ghafouri, B., Ståhlbom, B., Tagesson, C., Lindahl, M., Newly identified proteins in human nasal lavage fluid from non-smokers and smokers using two-dimensional gel electrophoresis and peptide mass fingerprinting. Proteomics 2002, 2, 112-120.
176. Buccheri, G., in: Brambilla, C., Brambilla, E. (Eds.), Lung Tumors, Marcel Dekker, New York 1999, pp. 435-452.
177. Wait, R., Begum, S., Brambilla, D., Carabelli, A. M. et al., Redox options in two-dimensional electrophoresis. Amino Acids 2005, 28, 239-272.
178. Gianazza, E., Giacon, P., Sahlin, B., Righetti, P. G., Non-linear pH courses with immobilized pH gradients. Electrophoresis 1985, 6, 53-56.