1. Dissecting the Pathogenesis of Diabetic Retinopathy Based on the Biological ceRNA Network and Genome Variation Disturbance
- Author
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Qian Xu, Wenjian Lin, Xiaodan Zhu, Xinyang Yu, Ming Hao, Lei Cheng, Hong-Yu Kuang, and Xuefei Ma
- Subjects
Systems Analysis ,Article Subject ,Computer applications to medicine. Medical informatics ,R858-859.7 ,Single-nucleotide polymorphism ,Computational biology ,Biology ,General Biochemistry, Genetics and Molecular Biology ,Transcription (biology) ,Gene expression ,Diabetes Mellitus ,Humans ,Gene Regulatory Networks ,Protein Interaction Maps ,RNA, Messenger ,Enhancer ,Gene ,Diabetic Retinopathy ,Models, Genetic ,General Immunology and Microbiology ,Competing endogenous RNA ,Applied Mathematics ,Computational Biology ,Genetic Variation ,General Medicine ,Precision medicine ,Modeling and Simulation ,Disease Progression ,RNA, Long Noncoding ,Biological network ,Research Article - Abstract
Background. Diabetic retinopathy (DR) is the most important manifestation of diabetic microangiopathy. It is essential to explore the gene regulatory relationship and genomic variation disturbance of biological networks in DR progression. Methods. In this study, we constructed a comprehensive lncRNA-mRNA ceRNA network of DR procession (CLMN) and explored its topological characteristics. Results. Modular and functional analysis indicated that the organization of CLMN performed fundamental and specific functions in diabetes and DR pathology. The differential expression of hub ceRNA nodes and positive correlation reveals the highly connected ceRNA regulation and important roles in the regulating of DR pathology. A large proportion of SNPs in the TFBS, DHS, and enhancer regions of lncRNAs will affect lncRNA transcription and further cause expression variation. Some SNPs were found to disrupt the lncRNA functional elements such as miRNA target binding sites. These results indicate the complex nature of genotypic effects in the disturbing of CLMN and further contribute to gene expression variation and different disease phenotypes. Conclusion. The identification of individual genomic variations and analysis of biological network disturbance by these genomic variations will help provide more personalized treatment plans and promote the development of precision medicine for DR.
- Published
- 2021
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