Genes and gene ontologies common to airflow obstruction and emphysema in the lungs of patients with COPD

PLoS ONE

Volumn 6, Issue 3, 2011, Pages

  Savarimuthu Francis, Santiyagu M ^a,b   Larsen, Jill E ^a,b   Pavey, Sandra J ^b   Duhig, Edwina E ^a   Clarke, Belinda E ^a   Bowman, Rayleen V ^a,b   Hayward, Nick K ^c   Fong, Kwun M ^a,b   Yang, Ian A ^a,b  

^a THE PRINCE CHARLES HOSPITAL   (Australia)

^b UNIVERSITY OF QUEENSLAND   (Australia)

^c QIMR BERGHOFER MEDICAL RESEARCH INSTITUTE   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

ADOLESCENT; ADULT; AGED; AIRWAY OBSTRUCTION; ANGIOGENESIS; APOPTOSIS; ARTICLE; CELL ADHESION; CELL MIGRATION; CELL PROLIFERATION; CHRONIC OBSTRUCTIVE LUNG DISEASE; CLINICAL ARTICLE; CONTROLLED STUDY; CYRBD1 GENE; DISEASE SEVERITY; ELF1 GENE; EMPHYSEMA; ETS2 GENE; FEMALE; FORCED EXPIRATORY VOLUME; GAS DIFFUSION; GENE; GENE EXPRESSION PROFILING; GENE IDENTIFICATION; GENETIC ANALYSIS; HLA DPB1 GENE; HUMAN; HUMAN TISSUE; IMMUNOGLOBULIN HEAVY CHAIN GENE; LEUKOCYTE ACTIVATION; LOBECTOMY; LUNG CAPACITY; MALE; NNMT GENE; PREDICTION; PROTEIN EXPRESSION; PROTEIN FUNCTION; PTGDS GENE; RNA EXTRACTION; SENSITIVITY AND SPECIFICITY; SMOKING; THBS GENE; DEMOGRAPHY; GENE EXPRESSION REGULATION; GENETIC ASSOCIATION; GENETIC DATABASE; GENETICS; LUNG; LUNG EMPHYSEMA; LUNG FUNCTION TEST; METABOLISM; PATHOPHYSIOLOGY; REPRODUCIBILITY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION;

AGED; DATABASES, GENETIC; DEMOGRAPHY; FEMALE; GENE EXPRESSION REGULATION; GENETIC ASSOCIATION STUDIES; HUMANS; LUNG; MALE; PULMONARY DISEASE, CHRONIC OBSTRUCTIVE; PULMONARY EMPHYSEMA; REPRODUCIBILITY OF RESULTS; RESPIRATORY FUNCTION TESTS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION;

EID: 79952676017     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0017442     Document Type: Article

References (28)

1. Lopez AD, Murray CC, (1998) The global burden of disease, 1990-2020. Nat Med 4: 1241-1243.
2. Celli BR, MacNee W, (2004) Standards for the diagnosis and treatment of patients with COPD: a summary of the ATS/ERS position paper. Eur Respir J 23: 932-946.
3. Hogg JC, Chu F, Utokaparch S, Woods R, Elliott WM, et al. (2004) The nature of small-airway obstruction in chronic obstructive pulmonary disease. New England Journal of Medicine 350: 2645-2653.
4. Hogg JC, Wright JL, Wiggs BR, Coxson HO, Opazo Saez A, et al. (1994) Lung structure and function in cigarette smokers. Thorax 49: 473-478.
5. Gosselink JV, Hayashi S, Elliott WM, Xing L, Chan B, et al. (2010) Differential expression of tissue repair genes in the pathogenesis of chronic obstructive pulmonary disease. AJRCCM 181: 1329-1335.
6. Ning W, Li CJ, Kaminski N, Feghali-Bostwick CA, Alber SM, et al. (2004) Comprehensive gene expression profiles reveal pathways related to the pathogenesis of chronic obstructive pulmonary disease. PNAS 101: 14895-14900.
7. Oudijk EJ, Nijhuis EH, Zwank MD, van de Graaf EA, Mager HJ, et al. (2005) Systemic inflammation in COPD visualised by gene profiling in peripheral blood neutrophils. Thorax 60: 538-544.
8. Pierrou S, Broberg P, O'Donnell RA, Pawlowski K, Virtala R, et al. (2007) Expression of genes involved in oxidative stress responses in airway epithelial cells of smokers with chronic obstructive pulmonary disease. AJRCCM 175: 577-586.
9. Wang IM, Stepaniants S, Boie Y, Mortimer JR, Kennedy B, et al. (2008) Gene expression profiling in patients with chronic obstructive pulmonary disease and lung cancer. AJRCCM 177: 402-411.
10. Bhattacharya S, Srisuma S, Demeo DL, Shapiro SD, Bueno R, et al. (2009) Molecular biomarkers for quantitative and discrete COPD phenotypes. AJRCMB 40: 359-367.
11. Spira A, Beane J, Pinto-Plata V, Kadar A, Liu G, et al. (2004) Gene expression profiling of human lung tissue from smokers with severe emphysema. AJRCMB 31: 601-610.
12. Golpon HA, Coldren CD, Zamora MR, Cosgrove GP, Moore MD, et al. (2004) Emphysema lung tissue gene expression profiling. AJRCMB 31: 595-600.
13. Savarimuthu Francis SM, Larsen JE, Pavey SJ, Bowman RV, Hayward NK, et al. (2009) Expression profiling identifies genes involved in emphysema severity. Respir Res 10: 81.
14. Larsen JE, Pavey SJ, Passmore LH, Bowman R, Clarke BE, et al. (2007) Expression profiling defines a recurrence signature in lung squamous cell carcinoma. Carcinogenesis 28: 760-766.
15. Yang IA, Seeney SL, Wolter JM, Anders EM, McCormack JG, et al. (2003) Mannose-binding lectin gene polymorphism predicts hospital admissions for COPD infections. Genes Immun 4: 269-274.
16. (1995) Standardization of Spirometry, 1994 Update. American Thoracic Society. AJRCCM 152: 1107-1136.
17. Cotes JE, (1993) Lung Function London Blackwell Scientific Publications.
18. Vandesompele J, De Preter K, Pattyn F, Poppe B, Van Roy N, et al. (2002) Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol 3: RESEARCH0034.
19. Pfaffl MW, (2001) A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res 29: e45.
20. Dennis G Jr, Sherman BT, Hosack DA, Yang J, Gao W, et al. (2003) DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome Biol 4: 3.
21. Kim HC, Mofarrahi M, Vassilakopoulos T, Maltais F, Sigala I, et al. (2010) Expression and functional significance of nicotinamide N-methyl transferase in skeletal muscles of patients with chronic obstructive pulmonary disease. AJRCCM 181: 797-805.
22. Debigare R, Maltais F, Cote CH, Michaud A, Caron MA, et al. (2008) Profiling of mRNA expression in quadriceps of patients with COPD and muscle wasting. Copd 5: 75-84.
23. Dennery PA, Visner G, Weng YH, Nguyen X, Lu F, et al. (2003) Resistance to hyperoxia with heme oxygenase-1 disruption: role of iron. Free Radic Biol Med 34: 124-133.
24. Joo M, Kwon M, Sadikot RT, Kingsley PJ, Marnett LJ, et al. (2007) Induction and function of lipocalin prostaglandin D synthase in host immunity. J Immunol 179: 2565-2575.
25. Zupo S, Cutrona G, Mangiola M, Ferrarini M, (2002) Role of surface IgM and IgD on survival of the cells from B-cell chronic lymphocytic leukemia. Blood 99: 2277-2278.
26. Zeskind JE, Lenburg ME, Spira A, (2008) Translating the COPD Transcriptome: Insights into Pathogenesis and Tools for Clinical Management. Proc Am Thorac Soc 5: 834-841.
27. Yang IA, Francis SM, (2009) Deconstructing COPD using genomic tools. Respirology 14: 313-317.
28. Verducci JS, Melfi VF, Lin S, Wang Z, Roy S, et al. (2006) Microarray analysis of gene expression: considerations in data mining and statistical treatment. Physiol Genomics 25: 355-363.