Development of a blood proteins-based model for bronchopulmonary dysplasia prediction in premature infants.
Bronchopulmonary dysplasia
LASSO
Premature infants
Proteins model
WGCNA
Journal
BMC pediatrics
ISSN: 1471-2431
Titre abrégé: BMC Pediatr
Pays: England
ID NLM: 100967804
Informations de publication
Date de publication:
17 06 2023
17 06 2023
Historique:
received:
08
10
2022
accepted:
10
05
2023
medline:
19
6
2023
pubmed:
18
6
2023
entrez:
17
6
2023
Statut:
epublish
Résumé
Bronchopulmonary dysplasia (BPD) is the most common chronic pulmonary disease in premature infants. Blood proteins may be early predictors of the development of this disease. In this study, protein expression profiles (blood samples during their first week of life) and clinical data of the GSE121097 was downloaded from the Gene Expression Omnibus. Weighted gene co-expression network analysis (WGCNA) and differential protein analysis were carried out for variable dimensionality reduction and feature selection. Least absolute shrinkage and selection operator (LASSO) were conducted for BPD prediction model development. The performance of the model was evaluated by the receiver operating characteristic (ROC) curve, calibration curve, and decision curve. The results showed that black module, magenta module and turquoise module, which included 270 proteins, were significantly correlated with the occurrence of BPD. 59 proteins overlapped between differential analysis results and above three modules. These proteins were significantly enriched in 253 GO terms and 11 KEGG signaling pathways. Then, 59 proteins were reduced to 8 proteins by LASSO analysis in the training cohort. The proteins model showed good BPD predictive performance, with an AUC of 1.00 (95% CI 0.99-1.00) and 0.96 (95% CI 0.90-1.00) in training cohort and test cohort, respectively. Our study established a reliable blood-protein based model for early prediction of BPD in premature infants. This may help elucidate pathways to target in lessening the burden or severity of BPD.
Sections du résumé
BACKGROUND
Bronchopulmonary dysplasia (BPD) is the most common chronic pulmonary disease in premature infants. Blood proteins may be early predictors of the development of this disease.
METHODS
In this study, protein expression profiles (blood samples during their first week of life) and clinical data of the GSE121097 was downloaded from the Gene Expression Omnibus. Weighted gene co-expression network analysis (WGCNA) and differential protein analysis were carried out for variable dimensionality reduction and feature selection. Least absolute shrinkage and selection operator (LASSO) were conducted for BPD prediction model development. The performance of the model was evaluated by the receiver operating characteristic (ROC) curve, calibration curve, and decision curve.
RESULTS
The results showed that black module, magenta module and turquoise module, which included 270 proteins, were significantly correlated with the occurrence of BPD. 59 proteins overlapped between differential analysis results and above three modules. These proteins were significantly enriched in 253 GO terms and 11 KEGG signaling pathways. Then, 59 proteins were reduced to 8 proteins by LASSO analysis in the training cohort. The proteins model showed good BPD predictive performance, with an AUC of 1.00 (95% CI 0.99-1.00) and 0.96 (95% CI 0.90-1.00) in training cohort and test cohort, respectively.
CONCLUSION
Our study established a reliable blood-protein based model for early prediction of BPD in premature infants. This may help elucidate pathways to target in lessening the burden or severity of BPD.
Identifiants
pubmed: 37330491
doi: 10.1186/s12887-023-04065-3
pii: 10.1186/s12887-023-04065-3
pmc: PMC10276448
doi:
Substances chimiques
Blood Proteins
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
304Informations de copyright
© 2023. The Author(s).
Références
Cancers (Basel). 2019 Dec 21;12(1):
pubmed: 31877723
Semin Perinatol. 2013 Apr;37(2):69-78
pubmed: 23582960
Nucleic Acids Res. 2023 Jan 6;51(D1):D587-D592
pubmed: 36300620
Int J Biochem Cell Biol. 2017 Nov;92:173-182
pubmed: 28802561
Onco Targets Ther. 2020 Jul 12;13:6805-6817
pubmed: 32764968
J Perinat Med. 2004;32(3):282-7
pubmed: 15188806
Eur J Immunol. 1998 Jan;28(1):80-9
pubmed: 9485188
Clin Exp Immunol. 1994 Apr;96(1):110-5
pubmed: 7512004
Proc Natl Acad Sci U S A. 2003 May 13;100(10):6098-103
pubmed: 12732722
Front Pediatr. 2019 May 03;7:176
pubmed: 31131268
J Immunol. 1993 Jan 15;150(2):644-54
pubmed: 7678280
Biochemistry. 2005 Nov 29;44(47):15610-8
pubmed: 16300411
Nature. 1998 May 21;393(6682):276-80
pubmed: 9607766
Eur Respir J. 2014 Jul;44(1):109-21
pubmed: 24603819
Exp Eye Res. 2018 Jan;166:13-20
pubmed: 29031853
J Thromb Haemost. 2007 Jul;5 Suppl 1:73-80
pubmed: 17635713
Paediatr Respir Rev. 2018 Mar;26:55-59
pubmed: 29031795
J Perinatol. 2003 Sep;23(6):451-6
pubmed: 13679930
J Clin Oncol. 2016 Jun 20;34(18):2157-64
pubmed: 27138577
Early Hum Dev. 2013 Jun;89 Suppl 1:S69-73
pubmed: 23809356
PeerJ. 2022 Apr 11;10:e13196
pubmed: 35433129
Mol Med Rep. 2020 Sep;22(3):2564-2572
pubmed: 32705209
Am J Physiol Lung Cell Mol Physiol. 2013 Mar 15;304(6):L438-44
pubmed: 23333802
Am J Respir Crit Care Med. 2001 Jun;163(7):1723-9
pubmed: 11401896
BMJ. 2021 Oct 20;375:n1974
pubmed: 34670756
PLoS One. 2012;7(2):e31336
pubmed: 22363622
J Cell Mol Med. 2017 Jun;21(6):1128-1138
pubmed: 27957795
Am J Respir Cell Mol Biol. 2000 Sep;23(3):320-6
pubmed: 10970822
J Cell Biochem. 2010 Mar 1;109(4):737-46
pubmed: 20069574
Am J Physiol Lung Cell Mol Physiol. 2014 Feb;306(3):L246-59
pubmed: 24285264
Am J Respir Crit Care Med. 2015 Sep 1;192(5):589-96
pubmed: 26030808
J Appl Physiol (1985). 2012 Apr;112(8):1317-28
pubmed: 22323656
Mol Cell Pediatr. 2017 Nov 7;4(1):11
pubmed: 29116547
Am J Physiol Lung Cell Mol Physiol. 2020 Apr 1;318(4):L644-L654
pubmed: 31967847
Arch Dis Child Fetal Neonatal Ed. 2008 Nov;93(6):F455-61
pubmed: 18676410
BMC Bioinformatics. 2008 Dec 29;9:559
pubmed: 19114008
Nucleic Acids Res. 2000 Jan 1;28(1):27-30
pubmed: 10592173
Am J Physiol Lung Cell Mol Physiol. 2015 Dec 1;309(11):L1239-72
pubmed: 26361876
Semin Perinatol. 2018 Nov;42(7):425-431
pubmed: 30487069
Front Med (Lausanne). 2015 Aug 07;2:49
pubmed: 26301222