Comparative proteomic analysis of lung tissue from patients with Idiopathic pulmonary fibrosis (IPF) and lung transplant donor lungs

Journal of Proteome Research

Volumn 10, Issue 5, 2011, Pages 2185-2205

  Korfei, Martina ^a   Schmitt, Sigrid ^b   Ruppert, Clemens ^a   Henneke, Ingrid ^a   Markart, Philipp ^a   Loeh, Benjamin ^a   Mahavadi, Poornima ^a   Wygrecka, Malgorzata ^b   Klepetko, Walter ^c   Fink, Ludger ^a   Bonniaud, Philippe ^d   Preissner, Klaus T ^b   Lochnit, Günter ^b   Schaefer, Liliana ^e   Seeger, Werner ^a   Guenther, Andreas ^a,f  

^a JUSTUS LIEBIG UNIVERSITY GIESSEN   (Germany)

^b Institute of Biochemistry   (Germany)

^c MEDICAL UNIVERSITY OF VIENNA   (Austria)

^d HÔPITAL DU BOCAGE   (France)

^e GOETHE UNIVERSITY   (Germany)

^f Lung Clinic Waldhof Elgershausen   (Germany)

Author keywords

aberrant re epithelialization; bronchiolization; epithelial injury; heat shock 27 kDa protein; idiopathic pulmonary fibrosis; proteomics; two dimensional gel electrophoresis; unfolded protein response; usual interstitial pneumonia; valosin containing protein

Indexed keywords

HEAT SHOCK PROTEIN; HEAT SHOCK PROTEIN 27;

AMINO ACID SEQUENCE; APOPTOSIS; ARTICLE; CELL DAMAGE; CELL PROLIFERATION; CELL STRESS; CLINICAL ARTICLE; COMPARATIVE STUDY; CONTROLLED STUDY; DNA DAMAGE; FIBROSING ALVEOLITIS; HUMAN; HUMAN TISSUE; IMMUNOHISTOCHEMISTRY; LUNG ALVEOLUS EPITHELIUM; LUNG TRANSPLANTATION; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; ORGAN DONOR; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEOMICS; TWO DIMENSIONAL GEL ELECTROPHORESIS; UNFOLDED PROTEIN RESPONSE;

DNA DAMAGE; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; GENE EXPRESSION REGULATION; GENETIC MARKERS; HEAT-SHOCK PROTEINS; HUMANS; IDIOPATHIC PULMONARY FIBROSIS; IMMUNOHISTOCHEMISTRY; LUNG; PROTEINS; PROTEOMICS; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; TRANSPLANTS; UNFOLDED PROTEIN RESPONSE;

EID: 79955789007     PISSN: 15353893     EISSN: 15353907     Source Type: Journal    
DOI: 10.1021/pr1009355     Document Type: Article

References (94)

1. American Thoracic Society American Thoracic Society/European Respiratory Society International Multidisciplinary Consensus Classification of the Idiopathic Interstitial Pneumonias. This joint statement of the American Thoracic Society (ATS), and the European Respiratory Society (ERS) was adopted by the ATS board of directors, June 2001 and by the ERS Executive Committee, June 2001 Am. J. Respir. Crit. Care Med. 2002, 165 (2) 277-304
2. Coultas, D. B.; Zumwalt, R. E.; Black, W. C.; Sobonya, R. E. The epidemiology of interstitial lung diseases Am. J. Respir. Crit. Care Med. 1994, 150 (4) 967-72 (Pubitemid 24318021)
3. King, T. E., Jr.; Schwarz, M. I.; Brown, K.; Tooze, J. A.; Colby, T. V.; Waldron, J. A., Jr.; Flint, A.; Thurlbeck, W.; Cherniack, R. M. Idiopathic pulmonary fibrosis: relationship between histopathologic features and mortality Am. J. Respir. Crit. Care Med. 2001, 164 (6) 1025-32 (Pubitemid 32971653)
4. Katzenstein, A. L.; Myers, J. L. Idiopathic pulmonary fibrosis: clinical relevance of pathologic classification Am. J. Respir. Crit. Care Med. 1998, 157 (4 Pt. 1) 1301-15
5. Uhal, B. D.; Joshi, I.; Hughes, W. F.; Ramos, C.; Pardo, A.; Selman, M. Alveolar epithelial cell death adjacent to underlying myofibroblasts in advanced fibrotic human lung Am. J. Physiol. 1998, 275 (6 Pt. 1) L1192-9
6. Selman, M.; Pardo, A. Idiopathic pulmonary fibrosis: an epithelial/fibroblastic cross-talk disorder Respir. Res. 2002, 3, 3
7. Nogee, L. M.; Dunbar, A. E., III; Wert, S. E.; Askin, F.; Hamvas, A.; Whitsett, J. A. A mutation in the surfactant protein C gene associated with familial interstitial lung disease N. Engl. J. Med. 2001, 344 (8) 573-9 (Pubitemid 32167871)
8. Thomas, A. Q.; Lane, K.; Phillips, J., III; Prince, M.; Markin, C.; Speer, M.; Schwartz, D. A.; Gaddipati, R.; Marney, A.; Johnson, J.; Roberts, R.; Haines, J.; Stahlman, M.; Loyd, J. E. Heterozygosity for a surfactant protein C gene mutation associated with usual interstitial pneumonitis and cellular nonspecific interstitial pneumonitis in one kindred Am. J. Respir. Crit. Care Med. 2002, 165 (9) 1322-8 (Pubitemid 34461748)
9. Wang, W. J.; Mulugeta, S.; Russo, S. J.; Beers, M. F. Deletion of exon 4 from human surfactant protein C results in aggresome formation and generation of a dominant negative J. Cell Sci. 2003, 116 (Pt. 4) 683-92 (Pubitemid 36231307)
10. Wang, Y.; Kuan, P. J.; Xing, C.; Cronkhite, J. T.; Torres, F.; Rosenblatt, R. L.; DiMaio, J. M.; Kinch, L. N.; Grishin, N. V.; Garcia, C. K. Genetic defects in surfactant protein A2 are associated with pulmonary fibrosis and lung cancer Am. J. Hum. Genet. 2009, 84 (1) 52-9
11. Korfei, M.; Ruppert, C.; Mahavadi, P.; Henneke, I.; Markart, P.; Koch, M.; Lang, G.; Fink, L.; Bohle, R. M.; Seeger, W.; Weaver, T. E.; Guenther, A. Epithelial endoplasmic reticulum stress and apoptosis in sporadic idiopathic pulmonary fibrosis Am. J. Respir. Crit. Care Med. 2008, 178 (8) 838-46
12. Selman, M.; Pardo, A.; Barrera, L.; Estrada, A.; Watson, S. R.; Wilson, K.; Aziz, N.; Kaminski, N.; Zlotnik, A. Gene expression profiles distinguish idiopathic pulmonary fibrosis from hypersensitivity pneumonitis Am. J. Respir. Crit. Care Med. 2006, 173 (2) 188-98 (Pubitemid 43187891)
13. Kelly, M. M.; Leigh, R.; Gilpin, S. E.; Cheng, E.; Martin, G. E.; Radford, K.; Cox, G.; Gauldie, J. Cell-specific gene expression in patients with usual interstitial pneumonia Am. J. Respir. Crit. Care Med. 2006, 174 (5) 557-65 (Pubitemid 44330549)
14. Yang, I. V.; Burch, L. H.; Steele, M. P.; Savov, J. D.; Hollingsworth, J. W.; McElvania-Tekippe, E.; Berman, K. G.; Speer, M. C.; Sporn, T. A.; Brown, K. K.; Schwarz, M. I.; Schwartz, D. A. Gene expression profiling of familial and sporadic interstitial pneumonia Am. J. Respir. Crit. Care Med. 2007, 175 (1) 45-54 (Pubitemid 46105308)
15. Konishi, K.; Gibson, K. F.; Lindell, K. O.; Richards, T. J.; Zhang, Y.; Dhir, R.; Bisceglia, M.; Gilbert, S.; Yousem, S. A.; Song, J. W.; Kim, D. S.; Kaminski, N. Gene expression profiles of acute exacerbations of Idiopathic Pulmonary Fibrosis Am. J. Respir. Crit. Care Med. 2009, 180 (2) 167-75
16. Gorg, A.; Obermaier, C.; Boguth, G.; Harder, A.; Scheibe, B.; Wildgruber, R.; Weiss, W. The current state of two-dimensional electrophoresis with immobilized pH gradients Electrophoresis 2000, 21 (6) 1037-53 (Pubitemid 30230771)
17. Kim, J.; Choi, T. G.; Ding, Y.; Kim, Y.; Ha, K. S.; Lee, K. H.; Kang, I.; Ha, J.; Kaufman, R. J.; Lee, J.; Choe, W.; Kim, S. S. Overexpressed cyclophilin B suppresses apoptosis associated with ROS and Ca2+ homeostasis after ER stress J. Cell Sci. 2008, 121 (Pt. 21) 3636-48
18. Hironaka, M.; Fukayama, M. Pulmonary fibrosis and lung carcinoma: a comparative study of metaplastic epithelia in honeycombed areas of usual interstitial pneumonia with or without lung carcinoma Pathol. Int. 1999, 49 (12) 1060-6 (Pubitemid 30193504)
19. Chilosi, M.; Poletti, V.; Murer, B.; Lestani, M.; Cancellieri, A.; Montagna, L.; Piccoli, P.; Cangi, G.; Semenzato, G.; Doglioni, C. Abnormal re-epithelialization and lung remodeling in idiopathic pulmonary fibrosis: the role of deltaN-p63 Lab. Invest. 2002, 82 (10) 1335-45 (Pubitemid 35191537)
20. Chilosi, M.; Zamo, A.; Doglioni, C.; Reghellin, D.; Lestani, M.; Montagna, L.; Pedron, S.; Ennas, M. G.; Cancellieri, A.; Murer, B.; Poletti, V. Migratory marker expression in fibroblast foci of idiopathic pulmonary fibrosis Respir. Res. 2006, 7, 95
21. Chattopadhyay, S.; Sun, P.; Wang, P.; Abonyo, B.; Cross, N. L.; Liu, L. Fusion of lamellar body with plasma membrane is driven by the dual action of annexin II tetramer and arachidonic acid J. Biol. Chem. 2003, 278 (41) 39675-83 (Pubitemid 37248529)
22. Wang, P.; Chintagari, N. R.; Gou, D.; Su, L.; Liu, L. Physical and functional interactions of SNAP-23 with annexin A2 Am. J. Respir. Cell Mol. Biol. 2007, 37 (4) 467-76 (Pubitemid 47502722)
23. Gou, D.; Mishra, A.; Weng, T.; Su, L.; Chintagari, N. R.; Wang, Z.; Zhang, H.; Gao, L.; Wang, P.; Stricker, H. M.; Liu, L. Annexin A2 interactions with Rab14 in alveolar type II cells J. Biol. Chem. 2008, 283 (19) 13156-64
24. Yoshida, H. ER stress and diseases FEBS J. 2007, 274 (3) 630-58 (Pubitemid 46150855)
25. Kaufman, R. J. Stress signaling from the lumen of the endoplasmic reticulum: coordination of gene transcriptional and translational controls Genes Dev. 1999, 13 (10) 1211-33 (Pubitemid 29250189)
26. Gotoh, T.; Terada, K.; Oyadomari, S.; Mori, M. hsp70-DnaJ chaperone pair prevents nitric oxide- and CHOP-induced apoptosis by inhibiting translocation of Bax to mitochondria Cell Death Differ. 2004, 11 (4) 390-402 (Pubitemid 38489417)
27. Zinszner, H.; Kuroda, M.; Wang, X.; Batchvarova, N.; Lightfoot, R. T.; Remotti, H.; Stevens, J. L.; Ron, D. CHOP is implicated in programmed cell death in response to impaired function of the endoplasmic reticulum Genes Dev. 1998, 12 (7) 982-95 (Pubitemid 28204605)
28. Hitomi, J.; Katayama, T.; Eguchi, Y.; Kudo, T.; Taniguchi, M.; Koyama, Y.; Manabe, T.; Yamagishi, S.; Bando, Y.; Imaizumi, K.; Tsujimoto, Y.; Tohyama, M. Involvement of caspase-4 in endoplasmic reticulum stress-induced apoptosis and Abeta-induced cell death J. Cell Biol. 2004, 165 (3) 347-56 (Pubitemid 38649910)
29. Verrier, F.; Mignotte, B.; Jan, G.; Brenner, C. Study of PTPC composition during apoptosis for identification of viral protein target Ann. N.Y. Acad. Sci. 2003, 1010, 126-42 (Pubitemid 38264963)
30. Marciniak, S. J.; Ron, D. Endoplasmic reticulum stress signaling in disease Physiol. Rev. 2006, 86 (4) 1133-49 (Pubitemid 44521649)
31. Fu, H. Y.; Minamino, T.; Tsukamoto, O.; Sawada, T.; Asai, M.; Kato, H.; Asano, Y.; Fujita, M.; Takashima, S.; Hori, M.; Kitakaze, M. Overexpression of endoplasmic reticulum-resident chaperone attenuates cardiomyocyte death induced by proteasome inhibition Cardiovasc. Res. 2008, 79 (4) 600-10
32. Reddy, R. K.; Mao, C.; Baumeister, P.; Austin, R. C.; Kaufman, R. J.; Lee, A. S. Endoplasmic reticulum chaperone protein GRP78 protects cells from apoptosis induced by topoisomerase inhibitors: role of ATP binding site in suppression of caspase-7 activation J. Biol. Chem. 2003, 278 (23) 20915-24 (Pubitemid 36806399)
33. Liu, H.; Miller, E.; van de Water, B.; Stevens, J. L. Endoplasmic reticulum stress proteins block oxidant-induced Ca2+ increases and cell death J. Biol. Chem. 1998, 273 (21) 12858-62 (Pubitemid 28246843)
34. Lee, J.; Bruce-Keller, A. J.; Kruman, Y.; Chan, S. L.; Mattson, M. P. 2-Deoxy-D-glucose protects hippocampal neurons against excitotoxic and oxidative injury: evidence for the involvement of stress proteins J. Neurosci. Res. 1999, 57 (1) 48-61 (Pubitemid 29293579)
35. Vij, N. AAA ATPase p97/VCP: cellular functions, disease and therapeutic potential J. Cell. Mol. Med. 2008, 12 (6A) 2511-8
36. Meyer, H. H.; Shorter, J. G.; Seemann, J.; Pappin, D.; Warren, G. A complex of mammalian ufd1 and npl4 links the AAA-ATPase, p97, to ubiquitin and nuclear transport pathways EMBO J. 2000, 19 (10) 2181-92 (Pubitemid 30258999)
37. Zhong, X.; Shen, Y.; Ballar, P.; Apostolou, A.; Agami, R.; Fang, S. AAA ATPase p97/valosin-containing protein interacts with gp78, a ubiquitin ligase for endoplasmic reticulum-associated degradation J. Biol. Chem. 2004, 279 (44) 45676-84 (Pubitemid 39491556)
38. Hirabayashi, M.; Inoue, K.; Tanaka, K.; Nakadate, K.; Ohsawa, Y.; Kamei, Y.; Popiel, A. H.; Sinohara, A.; Iwamatsu, A.; Kimura, Y.; Uchiyama, Y.; Hori, S.; Kakizuka, A. VCP/p97 in abnormal protein aggregates, cytoplasmic vacuoles, and cell death, phenotypes relevant to neurodegeneration Cell Death Differ. 2001, 8 (10) 977-84 (Pubitemid 32994648)
39. Kawaguchi, Y.; Kovacs, J. J.; McLaurin, A.; Vance, J. M.; Ito, A.; Yao, T. P. The deacetylase HDAC6 regulates aggresome formation and cell viability in response to misfolded protein stress Cell 2003, 115 (6) 727-38 (Pubitemid 38030301)
40. Song, C.; Xiao, Z.; Nagashima, K.; Li, C. C.; Lockett, S. J.; Dai, R. M.; Cho, E. H.; Conrads, T. P.; Veenstra, T. D.; Colburn, N. H.; Wang, Q.; Wang, J. M. The heavy metal cadmium induces valosin-containing protein (VCP)-mediated aggresome formation Toxicol. Appl. Pharmacol. 2008, 228 (3) 351-63
41. Waelter, S.; Boeddrich, A.; Lurz, R.; Scherzinger, E.; Lueder, G.; Lehrach, H.; Wanker, E. E. Accumulation of mutant huntingtin fragments in aggresome-like inclusion bodies as a result of insufficient protein degradation Mol. Biol. Cell 2001, 12 (5) 1393-407 (Pubitemid 33044419)
42. Rao, R. V.; Poksay, K. S.; Castro-Obregon, S.; Schilling, B.; Row, R. H.; del Rio, G.; Gibson, B. W.; Ellerby, H. M.; Bredesen, D. E. Molecular components of a cell death pathway activated by endoplasmic reticulum stress J. Biol. Chem. 2004, 279 (1) 177-87 (Pubitemid 38044813)
43. Rao, R. V.; Ellerby, H. M.; Bredesen, D. E. Coupling endoplasmic reticulum stress to the cell death program Cell Death Differ. 2004, 11 (4) 372-80 (Pubitemid 38489415)
44. Li, J.; Wang, Q. E.; Zhu, Q.; El-Mahdy, M. A.; Wani, G.; Praetorius-Ibba, M.; Wani, A. A. DNA damage binding protein component DDB1 participates in nucleotide excision repair through DDB2 DNA-binding and cullin 4A ubiquitin ligase activity Cancer Res. 2006, 66 (17) 8590-7 (Pubitemid 44449173)
45. Andrejeva, J.; Poole, E.; Young, D. F.; Goodbourn, S.; Randall, R. E. The p127 subunit (DDB1) of the UV-DNA damage repair binding protein is essential for the targeted degradation of STAT1 by the V protein of the paramyxovirus simian virus 5 J. Virol. 2002, 76 (22) 11379-86 (Pubitemid 35231293)
46. Shen, Y. H.; Utama, B.; Wang, J.; Raveendran, M.; Senthil, D.; Waldman, W. J.; Belcher, J. D.; Vercellotti, G.; Martin, D.; Mitchelle, B. M.; Wang, X. L. Human cytomegalovirus causes endothelial injury through the ataxia telangiectasia mutant and p53 DNA damage signaling pathways Circ. Res. 2004, 94 (10) 1310-7 (Pubitemid 38724476)
47. Tang, Y. W.; Johnson, J. E.; Browning, P. J.; Cruz-Gervis, R. A.; Davis, A.; Graham, B. S.; Brigham, K. L.; Oates, J. A., Jr.; Loyd, J. E.; Stecenko, A. A. Herpesvirus DNA is consistently detected in lungs of patients with idiopathic pulmonary fibrosis J. Clin. Microbiol. 2003, 41 (6) 2633-40 (Pubitemid 36712478)
48. Lawson, W. E.; Crossno, P. F.; Polosukhin, V. V.; Roldan, J.; Cheng, D. S.; Lane, K. B.; Blackwell, T. R.; Xu, C.; Markin, C.; Ware, L. B.; Miller, G. G.; Loyd, J. E.; Blackwell, T. S. Endoplasmic reticulum stress in alveolar epithelial cells is prominent in IPF: association with altered surfactant protein processing and herpesvirus infection Am. J. Physiol.: Lung Cell. Mol. Physiol. 2008, 294 (6) L1119-26
49. Guay, J.; Lambert, H.; Gingras-Breton, G.; Lavoie, J. N.; Huot, J.; Landry, J. Regulation of actin filament dynamics by p38 map kinase-mediated phosphorylation of heat shock protein 27 J. Cell Sci. 1997, 110 (Pt. 3) 357-68 (Pubitemid 27095655)
50. Trott, D.; McManus, C. A.; Martin, J. L.; Brennan, B.; Dunn, M. J.; Rose, M. L. Effect of phosphorylated hsp27 on proliferation of human endothelial and smooth muscle cells Proteomics 2009, 9 (12) 3383-94
51. Huot, J.; Houle, F.; Spitz, D. R.; Landry, J. HSP27 phosphorylation- mediated resistance against actin fragmentation and cell death induced by oxidative stress Cancer Res. 1996, 56 (2) 273-9 (Pubitemid 26026354)
52. Shao, L.; Perez, R. E.; Gerthoffer, W. T.; Truog, W. E.; Xu, D. Heat shock protein 27 protects lung epithelial cells from hyperoxia-induced apoptotic cell death Pediatr. Res. 2009, 65 (3) 328-33
53. Jackson, R. M.; Garcia-Rojas, R. Kinase activity, heat shock protein 27 phosphorylation, and lung epithelial cell glutathione Exp. Lung Res. 2008, 34 (5) 245-62 (Pubitemid 351882709)
54. Vishwanatha, J. K.; Jindal, H. K.; Davis, R. G. The role of primer recognition proteins in DNA replication: association with nuclear matrix in HeLa cells J. Cell Sci. 1992, 101 (Pt. 1) 25-34
55. Shichijo, S.; Azuma, K.; Komatsu, N.; Ito, M.; Maeda, Y.; Ishihara, Y.; Itoh, K. Two proliferation-related proteins, TYMS and PGK1, could be new cytotoxic T lymphocyte-directed tumor-associated antigens of HLA-A2+ colon cancer Clin. Cancer Res. 2004, 10 (17) 5828-36 (Pubitemid 39180962)
56. Jindal, H. K.; Vishwanatha, J. K. Functional identity of a primer recognition protein as phosphoglycerate kinase J. Biol. Chem. 1990, 265 (12) 6540-3
57. Popanda, O.; Fox, G.; Thielmann, H. W. Modulation of DNA polymerases alpha, delta and epsilon by lactate dehydrogenase and 3-phosphoglycerate kinase Biochim. Biophys. Acta 1998, 1397 (1) 102-17 (Pubitemid 28183879)
58. 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 (9) 1776-84
59. Scotton, C. J.; Chambers, R. C. Molecular targets in pulmonary fibrosis: the myofibroblast in focus Chest 2007, 132 (4) 1311-21 (Pubitemid 47621009)
60. Inage, M.; Nakamura, H.; Kato, S.; Saito, H.; Abe, S.; Hino, T.; Tomoike, H. Levels of cytokeratin 19 fragments in bronchoalveolar lavage fluid correlate to the intensity of neutrophil and eosinophil-alveolitis in patients with idiopathic pulmonary fibrosis Respir. Med. 2000, 94 (2) 155-60 (Pubitemid 30107664)
61. Dobashi, N.; Fujita, J.; Ohtsuki, Y.; Yamadori, I.; Yoshinouchi, T.; Kamei, T.; Takahara, J. Elevated serum and BAL cytokeratin 19 fragment in pulmonary fibrosis and acute interstitial pneumonia Eur. Respir. J. 1999, 14 (3) 574-8 (Pubitemid 29479721)
62. Yamashiro, S.; Yamakita, Y.; Ono, S.; Matsumura, F. Fascin, an actin-bundling protein, induces membrane protrusions and increases cell motility of epithelial cells Mol. Biol. Cell 1998, 9 (5) 993-1006 (Pubitemid 28457295)
63. Parente, L.; Solito, E. Annexin 1: more than an anti-phospholipase protein Inflammation Res. 2004, 53 (4) 125-32 (Pubitemid 38526595)
64. Hannon, R.; Croxtall, J. D.; Getting, S. J.; Roviezzo, F.; Yona, S.; Paul-Clark, M. J.; Gavins, F. N.; Perretti, M.; Morris, J. F.; Buckingham, J. C.; Flower, R. J. Aberrant inflammation and resistance to glucocorticoids in annexin 1-/- mouse FASEB J. 2003, 17 (2) 253-5
65. Tsao, F. H.; Meyer, K. C.; Chen, X.; Rosenthal, N. S.; Hu, J. Degradation of annexin I in bronchoalveolar lavage fluid from patients with cystic fibrosis Am. J. Respir. Cell Mol. Biol. 1998, 18 (1) 120-8 (Pubitemid 128355354)
66. Smith, S. F.; Tetley, T. D.; Guz, A.; Flower, R. J. Detection of lipocortin 1 in human lung lavage fluid: lipocortin degradation as a possible proteolytic mechanism in the control of inflammatory mediators and inflammation Environ. Health Perspect. 1990, 85, 135-44 (Pubitemid 20315292)
67. Kurosu, K.; Takiguchi, Y.; Okada, O.; Yumoto, N.; Sakao, S.; Tada, Y.; Kasahara, Y.; Tanabe, N.; Tatsumi, K.; Weiden, M.; Rom, W. N.; Kuriyama, T. Identification of annexin 1 as a novel autoantigen in acute exacerbation of idiopathic pulmonary fibrosis J. Immunol. 2008, 181 (1) 756-67
68. Bensalem, N.; Ventura, A. P.; Vallee, B.; Lipecka, J.; Tondelier, D.; Davezac, N.; Dos Santos, A.; Perretti, M.; Fajac, A.; Sermet-Gaudelus, I.; Renouil, M.; Lesure, J. F.; Halgand, F.; Laprevote, O.; Edelman, A. Down-regulation of the anti-inflammatory protein annexin A1 in cystic fibrosis knock-out mice and patients Mol. Cell. Proteomics 2005, 4 (10) 1591-601 (Pubitemid 41555482)
69. Chung, Y. W.; Oh, H. Y.; Kim, J. Y.; Kim, J. H.; Kim, I. Y. Allergen-induced proteolytic cleavage of annexin-1 and activation of cytosolic phospholipase A2 in the lungs of a mouse model of asthma Proteomics 2004, 4 (11) 3328-34
70. Nagase, T.; Uozumi, N.; Ishii, S.; Kita, Y.; Yamamoto, H.; Ohga, E.; Ouchi, Y.; Shimizu, T. A pivotal role of cytosolic phospholipase A(2) in bleomycin-induced pulmonary fibrosis Nat. Med. 2002, 8 (5) 480-4 (Pubitemid 34546750)
71. Ling, Q.; Jacovina, A. T.; Deora, A.; Febbraio, M.; Simantov, R.; Silverstein, R. L.; Hempstead, B.; Mark, W. H.; Hajjar, K. A. Annexin II regulates fibrin homeostasis and neoangiogenesis in vivo J. Clin. Invest. 2004, 113 (1) 38-48 (Pubitemid 38541630)
72. Gunther, A.; Schmidt, R.; Nix, F.; Yabut-Perez, M.; Guth, C.; Rosseau, S.; Siebert, C.; Grimminger, F.; Morr, H.; Velcovsky, H. G.; Seeger, W. Surfactant abnormalities in idiopathic pulmonary fibrosis, hypersensitivity pneumonitis and sarcoidosis Eur. Respir. J. 1999, 14 (3) 565-73 (Pubitemid 29479720)
73. Schmidt, R.; Meier, U.; Markart, P.; Grimminger, F.; Velcovsky, H. G.; Morr, H.; Seeger, W.; Gunther, A. Altered fatty acid composition of lung surfactant phospholipids in interstitial lung disease Am. J. Physiol.: Lung Cell. Mol. Physiol. 2002, 283 (5) L1079-85
74. Welsh, J. B.; Zarrinkar, P. P.; Sapinoso, L. M.; Kern, S. G.; Behling, C. A.; Monk, B. J.; Lockhart, D. J.; Burger, R. A.; Hampton, G. M. Analysis of gene expression profiles in normal and neoplastic ovarian tissue samples identifies candidate molecular markers of epithelial ovarian cancer Proc. Natl. Acad. Sci. U.S.A. 2001, 98 (3) 1176-81 (Pubitemid 32121206)
75. Zimmermann, U.; Woenckhaus, C.; Pietschmann, S.; Junker, H.; Maile, S.; Schultz, K.; Protzel, C.; Giebel, J. Expression of annexin II in conventional renal cell carcinoma is correlated with Fuhrman grade and clinical outcome Virchows Arch 2004, 445 (4) 368-74
76. Babbin, B. A.; Parkos, C. A.; Mandell, K. J.; Winfree, L. M.; Laur, O.; Ivanov, A. I.; Nusrat, A. Annexin 2 regulates intestinal epithelial cell spreading and wound closure through Rho-related signaling Am. J. Pathol. 2007, 170 (3) 951-66 (Pubitemid 47339364)
77. Niimi, S.; Harashima, M.; Gamou, M.; Hyuga, M.; Seki, T.; Ariga, T.; Kawanishi, T.; Hayakawa, T. Expression of annexin A3 in primary cultured parenchymal rat hepatocytes and inhibition of DNA synthesis by suppression of annexin A3 expression using RNA interference Biol. Pharm. Bull. 2005, 28 (3) 424-8 (Pubitemid 40879962)
78. Harashima, M.; Harada, K.; Ito, Y.; Hyuga, M.; Seki, T.; Ariga, T.; Yamaguchi, T.; Niimi, S. Annexin A3 expression increases in hepatocytes and is regulated by hepatocyte growth factor in rat liver regeneration J. Biochem. 2008, 143 (4) 537-45 (Pubitemid 351451770)
79. Madoz-Gurpide, J.; Lopez-Serra, P.; Martinez-Torrecuadrada, J. L.; Sanchez, L.; Lombardia, L.; Casal, J. I. Proteomics-based validation of genomic data: applications in colorectal cancer diagnosis Mol. Cell. Proteomics 2006, 5 (8) 1471-83
80. Liu, Y. F.; Xiao, Z. Q.; Li, M. X.; Li, M. Y.; Zhang, P. F.; Li, C.; Li, F.; Chen, Y. H.; Yi, H.; Yao, H. X.; Chen, Z. C. Quantitative proteome analysis reveals annexin A3 as a novel biomarker in lung adenocarcinoma J. Pathol. 2009, 217 (1) 54-64
81. Hashimoto, S.; Amaya, F.; Matsuyama, H.; Ueno, H.; Kikuchi, S.; Tanaka, M.; Watanabe, Y.; Ebina, M.; Ishizaka, A.; Tsukita, S.; Hashimoto, S. Dysregulation of lung injury and repair in moesin-deficient mice treated with intratracheal bleomycin Am. J. Physiol.: Lung Cell. Mol. Physiol. 2008, 295 (4) L566-74
82. Mossink, M. H.; van Zon, A.; Scheper, R. J.; Sonneveld, P.; Wiemer, E. A. Vaults: a ribonucleoprotein particle involved in drug resistance? Oncogene 2003, 22 (47) 7458-67 (Pubitemid 37487169)
83. Kowalski, M. P.; Dubouix-Bourandy, A.; Bajmoczi, M.; Golan, D. E.; Zaidi, T.; Coutinho-Sledge, Y. S.; Gygi, M. P.; Gygi, S. P.; Wiemer, E. A.; Pier, G. B. Host resistance to lung infection mediated by major vault protein in epithelial cells Science 2007, 317 (5834) 130-2 (Pubitemid 47056473)
84. Raghu, G.; Brown, K. K.; Bradford, W. Z.; Starko, K.; Noble, P. W.; Schwartz, D. A.; King, T. E., Jr. A placebo-controlled trial of interferon gamma-1b in patients with idiopathic pulmonary fibrosis N. Engl. J. Med. 2004, 350 (2) 125-33 (Pubitemid 38056223)
85. Farioli-Vecchioli, S.; Nardacci, R.; Falciatori, I.; Stefanini, S. Catalase immunocytochemistry allows automatic detection of lung type II alveolar cells Histochem. Cell Biol. 2001, 115 (4) 333-9 (Pubitemid 32323890)
86. Lakari, E.; Paakko, P.; Pietarinen-Runtti, P.; Kinnula, V. L. Manganese superoxide dismutase and catalase are coordinately expressed in the alveolar region in chronic interstitial pneumonias and granulomatous diseases of the lung Am. J. Respir. Crit. Care Med. 2000, 161 (2 Pt. 1) 615-21 (Pubitemid 30129475)
87. Kinnula, V. L.; Lehtonen, S.; Kaarteenaho-Wiik, R.; Lakari, E.; Paakko, P.; Kang, S. W.; Rhee, S. G.; Soini, Y. Cell specific expression of peroxiredoxins in human lung and pulmonary sarcoidosis Thorax 2002, 57 (2) 157-64 (Pubitemid 34123891)
88. Kinnula, V. L.; Myllarniemi, M. Oxidant-antioxidant imbalance as a potential contributor to the progression of human pulmonary fibrosis Antioxid. Redox Signaling 2008, 10 (4) 727-38 (Pubitemid 351225901)
89. Bridges, R. S.; Kass, D.; Loh, K.; Glackin, C.; Borczuk, A. C.; Greenberg, S. Gene expression profiling of pulmonary fibrosis identifies Twist1 as an antiapoptotic molecular "rectifier" of growth factor signaling Am. J. Pathol. 2009, 175 (6) 2351-61
90. Zuo, F.; Kaminski, N.; Eugui, E.; Allard, J.; Yakhini, Z.; Ben-Dor, A.; Lollini, L.; Morris, D.; Kim, Y.; DeLustro, B.; Sheppard, D.; Pardo, A.; Selman, M.; Heller, R. A. Gene expression analysis reveals matrilysin as a key regulator of pulmonary fibrosis in mice and humans Proc. Natl. Acad. Sci. U.S.A. 2002, 99 (9) 6292-97 (Pubitemid 34493305)
91. Wienholds, E.; Plasterk, R. H. MicroRNA function in animal development FEBS Lett. 2005, 579 (26) 5911-22 (Pubitemid 41487106)
92. Guo, H.; Ingolia, N. T.; Weissman, J. S.; Bartel, D. P. Mammalian microRNAs predominantly act to decrease target mRNA levels Nature 2010, 466 (7308) 835-40
93. Rogers, S.; Girolami, M.; Kolch, W.; Waters, K. M.; Liu, T.; Thrall, B.; Wiley, H. S. Investigating the correspondence between transcriptomic and proteomic expression profiles using coupled cluster models Bioinformatics 2008, 24 (24) 2894-900
94. Dhingra, V.; Gupta, M.; Andacht, T.; Fu, Z. F. New frontiers in proteomics research: a perspective Int. J. Pharm. 2005, 299 (1-2) 1-18 (Pubitemid 40962401)