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Construction of novel 10 signatures in diabetic retinopathy construction of model based on WGCNA: Mechanism of action of RPL3 and MRPL16 protein.

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Title: Construction of novel 10 signatures in diabetic retinopathy construction of model based on WGCNA: Mechanism of action of RPL3 and MRPL16 protein.
Authors: Xiaojing S; Department of Ophthalmology, First Affiliated Hospital of Dalian Medical University, Dalian 116011, China., Li M; Department of Ophthalmology, First Affiliated Hospital of Dalian Medical University, Dalian 116011, China. Electronic address: fymali@dmu.edu.cn.
Source: International journal of biological macromolecules [Int J Biol Macromol] 2025 Jan; Vol. 286, pp. 138235. Date of Electronic Publication: 2024 Nov 30.
Publication Type: Journal Article
Language: English
Journal Info: Publisher: Elsevier Country of Publication: Netherlands NLM ID: 7909578 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1879-0003 (Electronic) Linking ISSN: 01418130 NLM ISO Abbreviation: Int J Biol Macromol Subsets: MEDLINE
Imprint Name(s): Publication: Amsterdam : Elsevier
Original Publication: Guildford, Eng., IPC Science and Technology Press.
MeSH Terms: Diabetic Retinopathy*/genetics , Diabetic Retinopathy*/metabolism , Diabetic Retinopathy*/pathology , Ribosomal Proteins*/genetics , Ribosomal Proteins*/metabolism , Ribosomal Protein L3*/genetics , Ribosomal Protein L3*/metabolism , Mitochondrial Proteins*/genetics , Mitochondrial Proteins*/metabolism , Gene Regulatory Networks*, Computational Biology/methods ; Humans ; Animals ; Gene Expression Profiling ; Gene Expression Regulation ; Male
Abstract: Diabetic retinopathy is a common microvascular complication in diabetic patients, which can lead to blindness in severe cases. At present, although a variety of treatment methods are available, the pathological mechanism has not been fully elucidated. As ribosomal proteins, RPL3 and MRPL16 play important roles in cell metabolism and protein synthesis, but their specific roles in diabetic retinopathy are unclear. This study aims to construct new features of diabetic retinopathy by WGCNA method, and reveal the mechanism of RPL3 and MRPL16 protein in diabetic retinopathy, so as to provide new ideas for the early diagnosis and treatment of diabetic retinopathy. The study collected retinal tissue samples from patients with diabetic retinopathy and used high-throughput sequencing techniques to obtain gene expression data. Gene expression data were analyzed by WGCNA method to construct the characteristic module of diabetic retinopathy. On this basis, the genes significantly associated with diabetic retinopathy were screened out, and the mechanism of action of RPL3 and MRPL16 proteins in diabetic retinopathy was studied through bioinformatics analysis and experimental verification. Through WGCNA analysis, we successfully constructed a characteristic module of diabetic retinopathy and screened out genes significantly associated with the disease. Further studies have shown that RPL3 and MRPL16 proteins are up-regulated in diabetic retinopathy and play key roles in cell metabolism and protein synthesis. Through in vitro experiments and animal model verification, we found that the abnormal expression of RPL3 and MRPL16 proteins is closely related to the pathological process of diabetic retinopathy.
(Copyright © 2024 Elsevier B.V. All rights reserved.)
Competing Interests: Declaration of competing interest The authors declare no competing interests.
Contributed Indexing: Keywords: Construction of new 10 features; Diabetes; Mechanism of protein action; Retinopathy; WGCNA: RPL3 and MRPL16
Substance Nomenclature: 0 (Ribosomal Proteins)
0 (Ribosomal Protein L3)
0 (RPL3 protein, human)
0 (Mitochondrial Proteins)
Entry Date(s): Date Created: 20241201 Date Completed: 20250426 Latest Revision: 20250517
Update Code: 20260130
DOI: 10.1016/j.ijbiomac.2024.138235
PMID: 39617243
Database: MEDLINE
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  Data: Construction of novel 10 signatures in diabetic retinopathy construction of model based on WGCNA: Mechanism of action of RPL3 and MRPL16 protein.
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  Data: <searchLink fieldCode="AU" term="%22Xiaojing+S%22">Xiaojing S</searchLink>; Department of Ophthalmology, First Affiliated Hospital of Dalian Medical University, Dalian 116011, China.<br /><searchLink fieldCode="AU" term="%22Li+M%22">Li M</searchLink>; Department of Ophthalmology, First Affiliated Hospital of Dalian Medical University, Dalian 116011, China. Electronic address: fymali@dmu.edu.cn.
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  Data: <searchLink fieldCode="MM" term="%22Diabetic+Retinopathy%22">Diabetic Retinopathy*</searchLink>/<searchLink fieldCode="MM" term="%22Diabetic+Retinopathy+genetics%22">genetics</searchLink> <br /><searchLink fieldCode="MM" term="%22Diabetic+Retinopathy%22">Diabetic Retinopathy*</searchLink>/<searchLink fieldCode="MM" term="%22Diabetic+Retinopathy+metabolism%22">metabolism</searchLink> <br /><searchLink fieldCode="MM" term="%22Diabetic+Retinopathy%22">Diabetic Retinopathy*</searchLink>/<searchLink fieldCode="MM" term="%22Diabetic+Retinopathy+pathology%22">pathology</searchLink> <br /><searchLink fieldCode="MM" term="%22Ribosomal+Proteins%22">Ribosomal Proteins*</searchLink>/<searchLink fieldCode="MM" term="%22Ribosomal+Proteins+genetics%22">genetics</searchLink> <br /><searchLink fieldCode="MM" term="%22Ribosomal+Proteins%22">Ribosomal Proteins*</searchLink>/<searchLink fieldCode="MM" term="%22Ribosomal+Proteins+metabolism%22">metabolism</searchLink> <br /><searchLink fieldCode="MM" term="%22Ribosomal+Protein+L3%22">Ribosomal Protein L3*</searchLink>/<searchLink fieldCode="MM" term="%22Ribosomal+Protein+L3+genetics%22">genetics</searchLink> <br /><searchLink fieldCode="MM" term="%22Ribosomal+Protein+L3%22">Ribosomal Protein L3*</searchLink>/<searchLink fieldCode="MM" term="%22Ribosomal+Protein+L3+metabolism%22">metabolism</searchLink> <br /><searchLink fieldCode="MM" term="%22Mitochondrial+Proteins%22">Mitochondrial Proteins*</searchLink>/<searchLink fieldCode="MM" term="%22Mitochondrial+Proteins+genetics%22">genetics</searchLink> <br /><searchLink fieldCode="MM" term="%22Mitochondrial+Proteins%22">Mitochondrial Proteins*</searchLink>/<searchLink fieldCode="MM" term="%22Mitochondrial+Proteins+metabolism%22">metabolism</searchLink> <br /><searchLink fieldCode="MM" term="%22Gene+Regulatory+Networks%22">Gene Regulatory Networks*</searchLink><br /><searchLink fieldCode="MH" term="%22Computational+Biology%22">Computational Biology</searchLink>/<searchLink fieldCode="MH" term="%22Computational+Biology+methods%22">methods</searchLink> ; <searchLink fieldCode="MH" term="%22Humans%22">Humans</searchLink> ; <searchLink fieldCode="MH" term="%22Animals%22">Animals</searchLink> ; <searchLink fieldCode="MH" term="%22Gene+Expression+Profiling%22">Gene Expression Profiling</searchLink> ; <searchLink fieldCode="MH" term="%22Gene+Expression+Regulation%22">Gene Expression Regulation</searchLink> ; <searchLink fieldCode="MH" term="%22Male%22">Male</searchLink>
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  Data: Diabetic retinopathy is a common microvascular complication in diabetic patients, which can lead to blindness in severe cases. At present, although a variety of treatment methods are available, the pathological mechanism has not been fully elucidated. As ribosomal proteins, RPL3 and MRPL16 play important roles in cell metabolism and protein synthesis, but their specific roles in diabetic retinopathy are unclear. This study aims to construct new features of diabetic retinopathy by WGCNA method, and reveal the mechanism of RPL3 and MRPL16 protein in diabetic retinopathy, so as to provide new ideas for the early diagnosis and treatment of diabetic retinopathy. The study collected retinal tissue samples from patients with diabetic retinopathy and used high-throughput sequencing techniques to obtain gene expression data. Gene expression data were analyzed by WGCNA method to construct the characteristic module of diabetic retinopathy. On this basis, the genes significantly associated with diabetic retinopathy were screened out, and the mechanism of action of RPL3 and MRPL16 proteins in diabetic retinopathy was studied through bioinformatics analysis and experimental verification. Through WGCNA analysis, we successfully constructed a characteristic module of diabetic retinopathy and screened out genes significantly associated with the disease. Further studies have shown that RPL3 and MRPL16 proteins are up-regulated in diabetic retinopathy and play key roles in cell metabolism and protein synthesis. Through in vitro experiments and animal model verification, we found that the abnormal expression of RPL3 and MRPL16 proteins is closely related to the pathological process of diabetic retinopathy.<br /> (Copyright © 2024 Elsevier B.V. All rights reserved.)
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  Data: Declaration of competing interest The authors declare no competing interests.
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  Data: <i>Keywords: </i>Construction of new 10 features; Diabetes; Mechanism of protein action; Retinopathy; WGCNA: RPL3 and MRPL16
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        Value: 10.1016/j.ijbiomac.2024.138235
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      – Code: eng
        Text: English
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        StartPage: 138235
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      – SubjectFull: Computational Biology methods
        Type: general
      – SubjectFull: Humans
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      – SubjectFull: Animals
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      – SubjectFull: Diabetic Retinopathy genetics
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      – SubjectFull: Diabetic Retinopathy metabolism
        Type: general
      – SubjectFull: Diabetic Retinopathy pathology
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      – SubjectFull: Ribosomal Proteins genetics
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      – TitleFull: Construction of novel 10 signatures in diabetic retinopathy construction of model based on WGCNA: Mechanism of action of RPL3 and MRPL16 protein.
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              Text: 2025 Jan
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