Differential Expression of Serum Proteins in Chronic Obstructive Pulmonary Disease Assessed Using Label-Free Proteomics and Bioinformatics Analyses

References

• Lareau SC, Fahy B, Meek P, Wang A. Chronic Obstructive Pulmonary Disease (COPD). Am J Respir Crit Care Med. 2019;199(1):P1–P2. doi:10.1164/rccm.1991P1
   PubMed Web of Science ®Google Scholar
• Huang ZY, Lin S, Long LL, et al. Predicting the morbidity of chronic obstructive pulmonary disease based on multiple locally weighted linear regression model with K-means clustering. Int J Med Inform. 2020;139:104141. doi:10.1016/j.ijmedinf.2020.104141
   PubMed Web of Science ®Google Scholar
• Stevenson CS, Koch LG, Britton SL. Aerobic capacity, oxidant stress, and chronic obstructive pulmonary disease--a new take on an old hypothesis. Pharmacol Ther. 2006;110(1):71–82. doi:10.1016/j.pharmthera.2005.09.006
   PubMed Web of Science ®Google Scholar
• Tillmann T. Global, regional, and national age–sex specific all-cause and cause-specific mortality for 240 causes of death, 1990–2013: a systematic analysis for the Global Burden of Disease Study 2013. The Lancet. 2015;385(9963):117–171. doi:10.1016/s0140-6736(14)
   PubMed Web of Science ®Google Scholar
• Wang C, Xu J, Yang L, et al. Prevalence and risk factors of chronic obstructive pulmonary disease in China (the China Pulmonary Health [CPH] study): a national cross-sectional study. The Lancet. 2018;391(10131):1706–1717. doi:10.1016/S0140-6736(18)30841-9
   PubMed Web of Science ®Google Scholar
• Vela E, Cleries M, Monterde D, et al. Performance of quantitative measures of multimorbidity: a population-based retrospective analysis. BMC Public Health. 2021;21(1):1881. doi:10.1186/s12889-021-11922-2
   PubMed Web of Science ®Google Scholar
• Vogelmeier CF, Roman-Rodriguez M, Singh D, Han MK, Rodriguez-Roisin R, Ferguson GT. Goals of COPD treatment: focus on symptoms and exacerbations. Respir Med. 2020;166:105938. doi:10.1016/j.rmed.2020.105938
   PubMed Web of Science ®Google Scholar
• Ancochea J, García TG, de Miguel Díez J. Hacia un tratamiento individualizado e integrado del paciente con EPOC. Arch de Bronconeumología. 2010;46:14–18. doi:10.1016/S0300-2896(10)70051-X
   PubMedGoogle Scholar
• Ferreira J, Drummond M, Pires N, et al. Optimal treatment sequence in COPD: can a consensus be found? Rev Port Pneumol. 2016;22(1):39–49. doi:10.1016/j.rppnen.2015.10.009
   PubMed Web of Science ®Google Scholar
• Garudadri S, Woodruff PG. Targeting Chronic Obstructive Pulmonary Disease Phenotypes, Endotypes, and Biomarkers. Ann Am Thorac Soc. 2018;15(Suppl 4):S234–S238. doi:10.1513/AnnalsATS.201808-533MG
   PubMed Web of Science ®Google Scholar
• Kunutsor SK, Jae SY, Makikallio TH, Kurl S, Laukkanen JA. High fitness levels offset the increased risk of chronic obstructive pulmonary disease due to low socioeconomic status: a cohort study. Respir Med. 2021;189:106647. doi:10.1016/j.rmed.2021.106647
   PubMed Web of Science ®Google Scholar
• Rotello RJ, Veenstra TD. Mass Spectrometry Techniques: principles and Practices for Quantitative Proteomics. Curr Protein Pept Sci. 2021;22(2):121–133. doi:10.2174/1389203721666200921153513
   PubMed Web of Science ®Google Scholar
• Nicholas BL, Skipp P, Barton S, et al. Identification of lipocalin and apolipoprotein A1 as biomarkers of chronic obstructive pulmonary disease. Am J Respir Crit Care Med. 2010;181(10):1049–1060. doi:10.1164/rccm.200906-0857OC
   PubMed Web of Science ®Google Scholar
• Fang Y, Wang P, Xia L, et al. Aberrantly hydroxymethylated differentially expressed genes and the associated protein pathways in osteoarthritis. PeerJ. 2019;7:e6425. doi:10.7717/peerj.6425
   PubMed Web of Science ®Google Scholar
• Zhang W, Xue X, Xie C, et al. CEGSO: boosting Essential Proteins Prediction by Integrating Protein Complex, Gene Expression, Gene Ontology, Subcellular Localization and Orthology Information. Interdiscip Sci. 2021;13(3):349–361. doi:10.1007/s12539-021-00426-7
   PubMed Web of Science ®Google Scholar
• Zhang J, Xing Z, Ma M, et al. Gene ontology and KEGG enrichment analyses of genes related to age-related macular degeneration. Biomed Res Int. 2014;2014:450386. doi:10.1155/2014/450386
   PubMed Web of Science ®Google Scholar
• Zhu N, Zhang D, Wang W, et al. A Novel Coronavirus from Patients with Pneumonia in China, 2019. N Engl J Med. 2020;382(8):727–733. doi:10.1056/NEJMoa2001017
   PubMed Web of Science ®Google Scholar
• Tatusov RL, Koonin EV, Lipman DJ. A genomic perspective on protein families. Science. 1997;278(5338):631–637. doi:10.1126/science.278.5338.631
   PubMed Web of Science ®Google Scholar
• Tatusov RL, Natale DA, Garkavtsev IV, et al. The COG database: new developments in phylogenetic classification of proteins from complete genomes. Nucleic Acids Res. 2001;29(1):22–28. doi:10.1093/nar/29.1.22
   PubMed Web of Science ®Google Scholar
• Liu Y, Liu H, Li C, Ma C, Ge W. Proteome Profiling of Lung Tissues in Chronic Obstructive Pulmonary Disease (COPD): platelet and Macrophage Dysfunction Contribute to the Pathogenesis of COPD. Int J Chron Obstruct Pulmon Dis. 2020;15:973–980. doi:10.2147/COPD.S246845
   PubMed Web of Science ®Google Scholar
• Li T, Forbes ME, Fuller GN, Li J, Yang X, Zhang W. IGFBP2: integrative hub of developmental and oncogenic signaling network. Oncogene. 2020;39(11):2243–2257. doi:10.1038/s41388-020-1154-2
   PubMed Web of Science ®Google Scholar
• Carrick FE, Forbes BE, Wallace JC. BIAcore analysis of bovine insulin-like growth factor (IGF)-binding protein-2 identifies major IGF binding site determinants in both the amino- and carboxyl-terminal domains. J Biol Chem. 2001;276(29):27120–27128. doi:10.1074/jbc.M101317200
   PubMed Web of Science ®Google Scholar
• Firth SM, Baxter RC. Cellular actions of the insulin-like growth factor binding proteins. Endocr Rev. 2002;23(6):824–854. doi:10.1210/er.2001-0033
   PubMed Web of Science ®Google Scholar
• Pintar JE, Wood TL, Streck RD, Havton L, Rogler L, Hsu MS. Expression of IGF-II, the IGF-II/mannose-6-phosphate receptor and IGFBP-2 during rat embryogenesis. Adv Exp Med Biol. 1991;293:325–333. doi:10.1007/978-1-4684-5949-4_29
   PubMedGoogle Scholar
• van Kleffens M, Groffen C, Lindenbergh-Kortleve DJ, et al. The IGF system during fetal-placental development of the mouse. Mol Cell Endocrinol. 1998;140(1–2):129–136. doi:10.1016/s0303-7207(98)
   PubMed Web of Science ®Google Scholar
• Verma BK, Kondaiah P. Regulation of beta-catenin by IGFBP2 and its cytoplasmic actions in glioma. J Neurooncol. 2020;149(2):209–217. doi:10.1007/s11060-020-03596-4
   PubMed Web of Science ®Google Scholar
• Andersson-Sjoland A, Hallgren O, Rolandsson S, et al. Versican in inflammation and tissue remodeling: the impact on lung disorders. Glycobiology. 2015;25(3):243–251. doi:10.1093/glycob/cwu120
   PubMed Web of Science ®Google Scholar
• Annoni R, Lancas T, Yukimatsu Tanigawa R, et al. Extracellular matrix composition in COPD. Eur Respir J. 2012;40(6):1362–1373. doi:10.1183/09031936.00192611
   PubMed Web of Science ®Google Scholar
• Wight TN, Kang I, Merrilees MJ. Versican and the control of inflammation. Matrix Biol. 2014;35:152–161. doi:10.1016/j.matbio.2014.01.015
   PubMed Web of Science ®Google Scholar
• Frey H, Schroeder N, Manon-Jensen T, Iozzo RV, Schaefer L. Biological interplay between proteoglycans and their innate immune receptors in inflammation. FEBS J. 2013;280(10):2165–2179. doi:10.1111/febs.12145
   PubMed Web of Science ®Google Scholar
• Gill S, Wight TN, Frevert CW. Proteoglycans: key regulators of pulmonary inflammation and the innate immune response to lung infection. Anat Rec. 2010;293(6):968–981. doi:10.1002/ar.21094
   Google Scholar
• Hallgren O, Nihlberg K, Dahlback M, et al. Altered fibroblast proteoglycan production in COPD. Respir Res. 2010;11:55. doi:10.1186/1465-9921-11-55
   PubMed Web of Science ®Google Scholar
• Bowler RP, Jacobson S, Cruickshank C, et al. Plasma sphingolipids associated with chronic obstructive pulmonary disease phenotypes. Am J Respir Crit Care Med. 2015;191(3):275–284. doi:10.1164/rccm.201410-1771OC
   PubMed Web of Science ®Google Scholar
• Li H, Liu Y, Wang L, et al. High apolipoprotein M serum levels correlate with chronic obstructive pulmonary disease. Lipids Health Dis. 2016;15(1):59. doi:10.1186/s12944-016-0228-1
   PubMed Web of Science ®Google Scholar
• Pennacchio LA, Olivier M, Hubacek JA, et al. An apolipoprotein influencing triglycerides in humans and mice revealed by comparative sequencing. Science. 2001;294(5540):169–173. doi:10.1126/science.1064852
   PubMed Web of Science ®Google Scholar
• Forte TM, Shu X, Ryan RO. The ins (cell) and outs (plasma) of apolipoprotein A-V. J Lipid Res. 2009;50(Suppl):S150–155. doi:10.1194/jlr.R800050-JLR200
   PubMed Web of Science ®Google Scholar
• Tosheska Trajkovska K, Topuzovska S. High-density lipoprotein metabolism and reverse cholesterol transport: strategies for raising HDL cholesterol. Anatol J Cardiol. 2017;18(2):149–154. doi:10.14744/AnatolJCardiol.2017.7608
   PubMed Web of Science ®Google Scholar