Lung proteomic biomarkers associated with chronic obstructive pulmonary disease.
biomarkers
chronic obstructive pulmonary disease
machine learning
mass spectrometry
proteomics
Journal
American journal of physiology. Lung cellular and molecular physiology
ISSN: 1522-1504
Titre abrégé: Am J Physiol Lung Cell Mol Physiol
Pays: United States
ID NLM: 100901229
Informations de publication
Date de publication:
01 12 2021
01 12 2021
Historique:
pubmed:
21
10
2021
medline:
28
12
2021
entrez:
20
10
2021
Statut:
ppublish
Résumé
Identifying protein biomarkers for chronic obstructive pulmonary disease (COPD) has been challenging. Most previous studies have used individual proteins or preselected protein panels measured in blood samples. Mass spectrometry proteomic studies of lung tissue have been based on small sample sizes. We used mass spectrometry proteomic approaches to discover protein biomarkers from 150 lung tissue samples representing COPD cases and controls. Top COPD-associated proteins were identified based on multiple linear regression analysis with false discovery rate (FDR) < 0.05. Correlations between pairs of COPD-associated proteins were examined. Machine learning models were also evaluated to identify potential combinations of protein biomarkers related to COPD. We identified 4,407 proteins passing quality controls. Twenty-five proteins were significantly associated with COPD at FDR < 0.05, including interleukin 33, ferritin (light chain and heavy chain), and two proteins related to caveolae (CAV1 and CAVIN1). Multiple previously reported plasma protein biomarkers for COPD were not significantly associated with proteomic analysis of COPD in lung tissue, although RAGE was borderline significant. Eleven pairs of top significant proteins were highly correlated (
Identifiants
pubmed: 34668408
doi: 10.1152/ajplung.00198.2021
pmc: PMC8715017
doi:
Substances chimiques
Biomarkers
0
Proteome
0
Banques de données
figshare
['10.6084/m9.figshare.16439025']
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
L1119-L1130Subventions
Organisme : NHLBI NIH HHS
ID : R01 HL133135
Pays : United States
Organisme : NIGMS NIH HHS
ID : R01 GM087221
Pays : United States
Organisme : NHLBI NIH HHS
ID : R01 HL147148
Pays : United States
Organisme : NHLBI NIH HHS
ID : R01 HL147326
Pays : United States
Organisme : NHLBI NIH HHS
ID : R01 HL137927
Pays : United States
Organisme : NCRR NIH HHS
ID : S10 RR027584
Pays : United States
Organisme : NHLBI NIH HHS
ID : R01 HL124233
Pays : United States
Organisme : NHLBI NIH HHS
ID : P01 HL114501
Pays : United States
Références
Eur Rev Med Pharmacol Sci. 2016;20(4):698-708
pubmed: 26957273
Am J Respir Crit Care Med. 2008 Dec 1;178(11):1130-8
pubmed: 18723436
Mediators Inflamm. 2013;2013:793505
pubmed: 24089590
J Biol Chem. 2002 Jul 5;277(27):24594-600
pubmed: 11976333
Ann Am Thorac Soc. 2019 Jul;16(7):826-835
pubmed: 30908927
Trends Mol Med. 2015 Sep;21(9):533-42
pubmed: 26231094
Chest. 2009 Feb;135(2):344-352
pubmed: 18753468
Chest. 2008 Feb;133(2):350-7
pubmed: 18198263
Respir Res. 2011 Mar 30;12:37
pubmed: 21450080
Proteomics Clin Appl. 2015 Aug;9(7-8):745-54
pubmed: 25631240
Eur Respir J. 2011 Mar;37(3):516-22
pubmed: 20595148
J Natl Cancer Inst. 2007 Nov 21;99(22):1668-82
pubmed: 18000218
Am J Physiol Lung Cell Mol Physiol. 2016 Jun 1;310(11):L1155-65
pubmed: 27084846
Ann N Y Acad Sci. 2004 May;1020:154-74
pubmed: 15208191
Nat Med. 2016 Feb;22(2):163-74
pubmed: 26752519
J Thorac Oncol. 2012 Dec;7(12):1747-1754
pubmed: 23154545
PLoS One. 2012;7(6):e38629
pubmed: 22701684
Chronic Obstr Pulm Dis. 2018 Oct 12;5(4):324-333
pubmed: 30723788
Oxid Med Cell Longev. 2018 Feb 11;2018:5730395
pubmed: 29599897
Cell. 1999 Jun 25;97(7):889-901
pubmed: 10399917
Thorax. 2007 Jul;62(7):595-601
pubmed: 17356059
BMJ Open Respir Res. 2019 May 4;6(1):e000431
pubmed: 31258919
Sci Rep. 2017 Mar 13;7:44232
pubmed: 28287180
Life Sci. 2019 Aug 1;230:1-9
pubmed: 31121174
Am J Respir Crit Care Med. 2015 Oct 1;192(7):785-92
pubmed: 26132989
Thorax. 2016 Mar;71(3):206-7
pubmed: 26732737
N Engl J Med. 2011 Oct 27;365(17):1567-75
pubmed: 22029978
Thorax. 2008 Dec;63(12):1058-63
pubmed: 18757456
Chest. 2020 May;157(5):1147-1157
pubmed: 31887283
J Extracell Vesicles. 2015 Nov 11;4:28388
pubmed: 26563733
Am J Physiol Lung Cell Mol Physiol. 2018 Apr 1;314(4):L690-L694
pubmed: 29351440
Am J Respir Crit Care Med. 2006 Oct 15;174(8):867-74
pubmed: 16799074
JAMA. 2005 Oct 12;294(14):1799-809
pubmed: 16219884
Front Immunol. 2019 Apr 16;10:692
pubmed: 31057533
Cell. 2016 Jul 28;166(3):766-778
pubmed: 27453469
Respir Res. 2017 Jun 13;18(1):117
pubmed: 28610627
Eur Respir J. 2015 Apr;45(4):1037-45
pubmed: 25614175
Eur Respir J. 2006 Nov;28(5):920-8
pubmed: 16807266
PLoS One. 2014 May 01;9(5):e96285
pubmed: 24789352
Biomed Pharmacother. 2019 Jun;114:108791
pubmed: 30901718
Am J Respir Crit Care Med. 2013 Oct 15;188(8):948-57
pubmed: 23947473
Eur Respir J. 2009 Jul;34(1):95-102
pubmed: 19164344
Am J Respir Crit Care Med. 2017 Nov 1;196(9):1103-1112
pubmed: 28410559
Biomarkers. 2019 May;24(3):232-239
pubmed: 30411980
Am J Respir Crit Care Med. 2011 Jun 15;183(12):1633-43
pubmed: 21471098
Eur Respir J. 2012 Mar;39(3):721-9
pubmed: 21920897
Respir Res. 2014 Aug 20;15:97
pubmed: 25134640
NPJ Prim Care Respir Med. 2017 Nov 14;27(1):62
pubmed: 29138407
Biomarkers. 2018 Nov;23(7):709-711
pubmed: 29781727
J Proteomics. 2013 Aug 26;89:227-37
pubmed: 23665002
Nucleic Acids Res. 2019 Jan 8;47(D1):D330-D338
pubmed: 30395331
Am J Respir Crit Care Med. 2017 Feb 15;195(4):473-481
pubmed: 27579823
J Chromatogr A. 2012 Aug 3;1249:103-14
pubmed: 22748375
Thorax. 2020 Feb;75(2):180-183
pubmed: 31937552
Eur Respir J. 2006 Jul;28(1):113-22
pubmed: 16611655