REFERENCES
1. Welsh JA, Goberdhan DC, O’Driscoll L, Théry C, Witwer KW. MISEV2023: an updated guide to EV research and applications. J Extracell Vesicles. 2024;13:e12416.
2. Dlugolecka M, Szymanski J, Zareba L, et al. Characterization of extracellular vesicles from bronchoalveolar lavage fluid and plasma of patients with lung lesions using fluorescence nanoparticle tracking analysis. Cells. 2021;10:3473.
3. Colombo SAP, Brown SL, Hepworth MR, et al. Comparative phenotype of circulating versus tissue immune cells in human lung and blood compartments during health and disease. Discov Immunol. 2023;2:kyad009.
4. Patel PH, Antoine MH, Sankari A, Ullah S. Bronchoalveolar Lavage. Available from: https://www.ncbi.nlm.nih.gov/books/NBK430762/. [Last accessed on 3 Apr 2026].
5. Rennard SI, Basset G, Lecossier D, et al. Estimation of volume of epithelial lining fluid recovered by lavage using urea as marker of dilution. J Appl Physiol. 1986;60:532-8.
6. Haeger S, Moore CM, McManus SA, Moore PK, Janssen WJ, Mould KJ. The bronchoalveolar lavage dilution conundrum: an updated view on a long-standing problem. Am J Physiol Lung Cell Mol Physiol. 2024;327:L807-13.
7. Gotoh T, Ueda S, Nakayama T, Takishita Y, Yasuoka S, Tsubura E. Protein components of bronchoalveolar lavage fluids from non-smokers and smokers. Eur J Respir Dis. 1983;64:369-77.
8. Nguyen EV, Gharib SA, Schnapp LM, Goodlett DR. Shotgun MS proteomic analysis of bronchoalveolar lavage fluid in normal subjects. Proteomics Clin Appl. 2014;8:737-47.
9. Carnino JM, Lee H, Jin Y. Isolation and characterization of extracellular vesicles from Broncho-alveolar lavage fluid: a review and comparison of different methods. Respir Res. 2019;20:240.
10. Momen-Heravi F, Balaj L, Alian S, et al. Current methods for the isolation of extracellular vesicles. Biol Chem. 2013;394:1253-62.
11. Smith PA, Kohli LM, Wood KL, Hage CA, Twigg HL 3rd, Knox KS. Cytometric analysis of BAL T cells labeled with a standardized antibody cocktail correlates with immunohistochemical staining. Cytometry B Clin Cytom. 2006;70:170-8.
12. Bachurski D, Schuldner M, Nguyen PH, et al. Extracellular vesicle measurements with nanoparticle tracking analysis - an accuracy and repeatability comparison between NanoSight NS300 and ZetaView. J Extracell Vesicles. 2019;8:1596016.
13. Filipe V, Hawe A, Jiskoot W. Critical evaluation of nanoparticle tracking analysis (NTA) by NanoSight for the measurement of nanoparticles and protein aggregates. Pharm Res. 2010;27:796-810.
14. Krishnamachary B, Cook C, Kumar A, Spikes L, Chalise P, Dhillon NK. Extracellular vesicle-mediated endothelial apoptosis and EV-associated proteins correlate with COVID-19 disease severity. J Extracell Vesicles. 2021;10:e12117.
15. Mosley AL, Sardiu ME, Pattenden SG, Workman JL, Florens L, Washburn MP. Highly reproducible label free quantitative proteomic analysis of RNA polymerase complexes. Mol Cell Proteomics. 2011;10:M110.000687.
16. Grecco GG, Haggerty DL, Doud EH, et al. A multi-omic analysis of the dorsal striatum in an animal model of divergent genetic risk for alcohol use disorder. J Neurochem. 2021;157:1013-31.
17. Szklarczyk D, Kirsch R, Koutrouli M, et al. The STRING database in 2023: protein-protein association networks and functional enrichment analyses for any sequenced genome of interest. Nucleic Acids Res. 2023;51:D638-46.
18. Linares R, Tan S, Gounou C, Arraud N, Brisson AR. High-speed centrifugation induces aggregation of extracellular vesicles. J Extracell Vesicles. 2015;4:29509.
19. Sódar BW, Kittel Á, Pálóczi K, et al. Low-density lipoprotein mimics blood plasma-derived exosomes and microvesicles during isolation and detection. Sci Rep. 2016;6:24316.
20. Davidsson P, Hulthe J, Fagerberg B, Camejo G. Proteomics of apolipoproteins and associated proteins from plasma high-density lipoproteins. Arterioscler Thromb Vasc Biol. 2010;30:156-63.
21. Ma Z, Zhong J, Tu W, Li S, Chen J. The functions of apolipoproteins and lipoproteins in health and disease. Mol Biomed. 2024;5:53.
22. Stam J, Bartel S, Bischoff R, Wolters JC. Isolation of extracellular vesicles with combined enrichment methods. J Chromatogr B Analyt Technol Biomed Life Sci. 2021;1169:122604.
23. De Sousa KP, Rossi I, Abdullahi M, Ramirez MI, Stratton D, Inal JM. Isolation and characterization of extracellular vesicles and future directions in diagnosis and therapy. Wiley Interdiscip Rev Nanomed Nanobiotechnol. 2023;15:e1835.
24. Guan S, Yu H, Yan G, Gao M, Sun W, Zhang X. Characterization of urinary exosomes purified with size exclusion chromatography and ultracentrifugation. J Proteome Res. 2020;19:2217-25.
25. Mol EA, Goumans MJ, Doevendans PA, Sluijter JPG, Vader P. Higher functionality of extracellular vesicles isolated using size-exclusion chromatography compared to ultracentrifugation. Nanomedicine. 2017;13:2061-5.
26. Monguió-Tortajada M, Gálvez-Montón C, Bayes-Genis A, Roura S, Borràs FE. Extracellular vesicle isolation methods: rising impact of size-exclusion chromatography. Cell Mol Life Sci. 2019;76:2369-82.
27. Koh YQ, Almughlliq FB, Vaswani K, Peiris HN, Mitchell MD. Exosome enrichment by ultracentrifugation and size exclusion chromatography. Front Biosci. 2018;23:865-74.
28. Gámez-Valero A, Monguió-Tortajada M, Carreras-Planella L, Franquesa Ml, Beyer K, Borràs FE. Size-exclusion chromatography-based isolation minimally alters extracellular vesicles’ characteristics compared to precipitating agents. Sci Rep. 2016;6:33641.
29. Konoshenko MY, Lekchnov EA, Vlassov AV, Laktionov PP. Isolation of extracellular vesicles: general methodologies and latest trends. Biomed Res Int. 2018;2018:8545347.
30. Macías M, Rebmann V, Mateos B, et al. Comparison of six commercial serum exosome isolation methods suitable for clinical laboratories. Effect in cytokine analysis. Clin Chem Lab Med. 2019;57:1539-45.
31. Serrano-Pertierra E, Oliveira-Rodríguez M, Rivas M, et al. Characterization of plasma-derived extracellular vesicles isolated by different methods: a comparison study. Bioengineering. 2019;6:8.
32. Kowal J, Arras G, Colombo M, et al. Proteomic comparison defines novel markers to characterize heterogeneous populations of extracellular vesicle subtypes. Proc Natl Acad Sci U S A. 2016;113:E968-77.
33. Skoczylas Ł, Gawin M, Fochtman D, Widłak P, Whiteside TL, Pietrowska M. Immune capture and protein profiling of small extracellular vesicles from human plasma. Proteomics. 2024;24:e2300180.
34. Lobb RJ, Becker M, Wen SW, et al. Optimized exosome isolation protocol for cell culture supernatant and human plasma. J Extracell Vesicles. 2015;4:27031.
35. Rood IM, Deegens JK, Merchant ML, et al. Comparison of three methods for isolation of urinary microvesicles to identify biomarkers of nephrotic syndrome. Kidney Int. 2010;78:810-6.
36. Wu M, Chen C, Wang Z, et al. Separating extracellular vesicles and lipoproteins via acoustofluidics. Lab Chip. 2019;19:1174-82.
37. Kim KJ, Malik AB. Protein transport across the lung epithelial barrier. Am J Physiol Lung Cell Mol Physiol. 2003;284:L247-59.
38. Reynolds HY. Immunoglobulin G and its function in the human respiratory tract. Mayo Clin Proc. 1988;63:161-74.
39. Tsering T, Nadeau A, Wu T, Dickinson K, Burnier JV. Extracellular vesicle-associated DNA: ten years since its discovery in human blood. Cell Death Dis. 2024;15:668.
40. Lu L, Li J, Moussaoui M, Boix E. Immune modulation by human secreted RNases at the extracellular space. Front Immunol. 2018;9:1012.
41. Fernández-Rhodes M, Adlou B, Williams S, et al. Defining the influence of size-exclusion chromatography fraction window and ultrafiltration column choice on extracellular vesicle recovery in a skeletal muscle model. J Extracell Biol. 2023;2:e85.
42. Ter-Ovanesyan D, Norman M, Lazarovits R, et al. Framework for rapid comparison of extracellular vesicle isolation methods. Elife. 2021;10:e70725.
43. Ji X, Huang S, Zhang J, et al. A novel method of high-purity extracellular vesicle enrichment from microliter-scale human serum for proteomic analysis. Electrophoresis. 2021;42:245-56.
44. Vergauwen G, Dhondt B, Van Deun J, et al. Confounding factors of ultrafiltration and protein analysis in extracellular vesicle research. Sci Rep. 2017;7:2704.
45. Pua HH, Happ HC, Gray CJ, et al. Increased hematopoietic extracellular RNAs and vesicles in the lung during allergic airway responses. Cell Rep. 2019;26:933-44.e4.
46. Rosenecker J, Naundorf S, Rudolph C. Airway surface liquid contains endogenous DNase activity which can be activated by exogenous magnesium. Eur J Med Res. 2009;14:304-8.
