Identification and validation of biomarkers related to lipid metabolism in osteoarthritis based on machine learning algorithms.

Publisher: BioMed Central Country of Publication: England NLM ID: 101147696 Publication Model: Electronic Cited Medium: Internet ISSN: 1476-511X (Electronic) Linking ISSN: 1476511X NLM ISO Abbreviation: Lipids Health Dis Subsets: MEDLINE

Original Publication: [London] : BioMed Central, 2002-

Lipid Metabolism*/genetics ; Osteoarthritis*/genetics; Humans ; Biomarkers ; Algorithms ; Machine Learning

Background: Osteoarthritis and lipid metabolism are strongly associated, although the precise targets and regulatory mechanisms are unknown.
Methods: Osteoarthritis gene expression profiles were acquired from the GEO database, while lipid metabolism-related genes (LMRGs) were sourced from the MigSB database. An intersection was conducted between these datasets to extract gene expression for subsequent differential analysis. Following this, functional analyses were performed on the differentially expressed genes (DEGs). Subsequently, machine learning was applied to identify hub genes associated with lipid metabolism in osteoarthritis. Immune-infiltration analysis was performed using CIBERSORT, and external datasets were employed to validate the expression of these hub genes.
Results: Nine DEGs associated with lipid metabolism in osteoarthritis were identified. UGCG and ESYT1, which are hub genes involved in lipid metabolism in osteoarthritis, were identified through the utilization of three machine learning algorithms. Analysis of the validation dataset revealed downregulation of UGCG in the experimental group compared to the normal group and upregulation of ESYT1 in the experimental group compared to the normal group.
Conclusions: UGCG and ESYT1 were considered as hub LMRGs in the development of osteoarthritis, which were regarded as candidate diagnostic markers. The effects are worth expected in the early diagnosis and treatment of osteoarthritis.
(© 2024. The Author(s).)

Lancet. 2015 Jul 25;386(9991):376-87. (PMID: 25748615)
Osteoarthritis Cartilage. 2015 Nov;23(11):1870-8. (PMID: 26162804)
Sci Rep. 2019 Mar 8;9(1):3975. (PMID: 30850711)
Molecules. 2023 May 11;28(10):. (PMID: 37241771)
Front Cell Dev Biol. 2023 Jun 30;11:1208315. (PMID: 37457300)
Arthritis Res Ther. 2009;11(3):224. (PMID: 19519926)
Best Pract Res Clin Rheumatol. 2018 Apr;32(2):312-326. (PMID: 30527434)
Biochem Biophys Res Commun. 2000 Jan 7;267(1):438-44. (PMID: 10623638)
Int J Mol Sci. 2022 Apr 19;23(9):. (PMID: 35562868)
Nat Rev Rheumatol. 2012 Dec;8(12):729-37. (PMID: 22907293)
Nat Commun. 2023 Apr 17;14(1):2194. (PMID: 37069167)
Sci Rep. 2017 Apr 18;7:46457. (PMID: 28418007)
Arthritis Res Ther. 2014 Jan 22;16(1):R19. (PMID: 24447395)
Prim Care. 2013 Dec;40(4):821-36, vii. (PMID: 24209720)
Biomolecules. 2023 Jul 20;13(7):. (PMID: 37509188)
Arthritis Rheum. 2012 Aug;64(8):2579-88. (PMID: 22391889)
Front Cell Dev Biol. 2022 Aug 16;10:988014. (PMID: 36158205)
Nat Commun. 2019 Jan 8;10(1):77. (PMID: 30622281)
Metabolism. 1991 Jun;40(6):571-6. (PMID: 1865821)
Nucleic Acids Res. 2017 Oct 13;45(18):10350-10368. (PMID: 28977640)
Curr Rheumatol Rep. 2019 Dec 7;21(12):71. (PMID: 31813080)
Front Immunol. 2022 Jul 04;13:907750. (PMID: 35860250)
Ann Rheum Dis. 2014 Oct;73(10):1844-53. (PMID: 23864235)
Front Cell Dev Biol. 2022 Aug 08;10:954376. (PMID: 36003144)
Best Pract Res Clin Rheumatol. 2015 Dec;29(6):741-55. (PMID: 27107510)
Nature. 2019 Feb;566(7743):254-258. (PMID: 30728500)
Proc Natl Acad Sci U S A. 2007 Mar 6;104(10):3823-8. (PMID: 17360437)
Nutrients. 2022 Sep 25;14(19):. (PMID: 36235637)
Osteoarthritis Cartilage. 2019 Sep;27(9):1257-1265. (PMID: 31146016)
Rheum Dis Clin North Am. 2013 Feb;39(1):1-19. (PMID: 23312408)
Nat Chem Biol. 2011 Oct 16;7(12):885-7. (PMID: 22002720)
Cancer Res. 2012 Aug 1;72(15):3764-74. (PMID: 22659450)
J Cell Biol. 2023 Mar 6;222(3):. (PMID: 36821088)
Ageing Res Rev. 2021 Mar;66:101249. (PMID: 33383189)
Onco Targets Ther. 2018 Sep 19;11:6001-6021. (PMID: 30275705)
Molecules. 2017 Nov 14;22(11):. (PMID: 29135918)
Osteoarthritis Cartilage. 2018 Nov;26(11):1531-1538. (PMID: 30081074)
Diagnostics (Basel). 2022 Feb 10;12(2):. (PMID: 35204546)
Arthritis Rheum. 2005 Sep;52(9):2799-807. (PMID: 16145669)
Arthritis Rheum. 2013 Sep;65(9):2323-33. (PMID: 23784884)
Cytokine Growth Factor Rev. 2018 Dec;44:38-50. (PMID: 30340925)
Osteoarthritis Cartilage. 2015 Apr;23(4):507-15. (PMID: 25447976)

Keywords: Bioinformatics analysis; Hub genes; Immune infiltration; Lipid metabolism; Machine learning; Osteoarthritis

0 (Biomarkers)

Date Created: 20240418 Date Completed: 20240422 Latest Revision: 20240425

20240425

PMC11025229

10.1186/s12944-024-02073-5

38637751