Constructing the biomolecular networks associated with diabetic nephropathy and dissecting the effects of biomolecule variation underlying pathogenesis
Diabetic nephropathy (DN) is a common and serious complication of diabetes, contributing significantly to patient mortality. Complication of DN (CDN) ranks as the second leading cause of end-stage renal disease globally. To address this, understanding the genetic regulation underlying DN is crucial...
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| Format: | Article |
| Language: | English |
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The Japan Endocrine Society
2024-11-01
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| Series: | Endocrine Journal |
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| Online Access: | https://www.jstage.jst.go.jp/article/endocrj/71/11/71_EJ24-0170/_html/-char/en |
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| author | Zi-Han Wang Qi Dong Qian Yan Wan-Rong Yu Dan-Dan Zhang Ran Yi |
| author_facet | Zi-Han Wang Qi Dong Qian Yan Wan-Rong Yu Dan-Dan Zhang Ran Yi |
| author_sort | Zi-Han Wang |
| collection | DOAJ |
| description | Diabetic nephropathy (DN) is a common and serious complication of diabetes, contributing significantly to patient mortality. Complication of DN (CDN) ranks as the second leading cause of end-stage renal disease globally. To address this, understanding the genetic regulation underlying DN is crucial for personalized treatment strategies. In this study, we identified genes and lncRNAs associated with diabetes and diabetic nephropathy constructing a DN-related lncRNA–mRNA network (DNLMN). This network, characterized by scale-free biomolecular properties, generated through the study of topological properties, elucidates key regulatory interactions. Enrichment analysis of important network modules revealed critical biological processes and pathways involved in DN pathogenesis. In the second step, we investigated the differential expression and co-expression of hub nodes in diseased and normal individuals, identifying lncRNA-mRNA relationships implicated in disease regulation. Finally, we gathered DN-related single nucleotide polymorphisms (SNPs) and lncRNAs from the LincSNP 3.0 database. The DNLMN encompasses SNP-associated lncRNAs, and transcription factors (TFs) linked to differentially expressed lncRNAs between diseased and normal samples. These results underscore the significance of biomolecular networks in disease progression and highlighting the role of biomolecular variability contributes to personalized disease phenotyping and treatment. |
| format | Article |
| id | doaj-art-d6ed02d4fa00431b8ae1ba2c3564c03c |
| institution | Kabale University |
| issn | 1348-4540 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | The Japan Endocrine Society |
| record_format | Article |
| series | Endocrine Journal |
| spelling | doaj-art-d6ed02d4fa00431b8ae1ba2c3564c03c2025-01-22T05:38:18ZengThe Japan Endocrine SocietyEndocrine Journal1348-45402024-11-0171111031104310.1507/endocrj.EJ24-0170endocrjConstructing the biomolecular networks associated with diabetic nephropathy and dissecting the effects of biomolecule variation underlying pathogenesisZi-Han Wang0Qi Dong1Qian Yan2Wan-Rong Yu3Dan-Dan Zhang4Ran Yi5Department of Endocrine, the First Affiliated Hospital of Harbin Medical University, Harbin 150001, People’s Republic of ChinaDepartment of Neurology, the First Affiliated Hospital of Harbin Medical University, Harbin 150001, People’s Republic of ChinaDepartment of Endocrine, the First Affiliated Hospital of Harbin Medical University, Harbin 150001, People’s Republic of ChinaDepartment of Endocrine, the First Affiliated Hospital of Harbin Medical University, Harbin 150001, People’s Republic of ChinaDepartment of Endocrine, the First Affiliated Hospital of Harbin Medical University, Harbin 150001, People’s Republic of ChinaDepartment of Endocrine, the First Affiliated Hospital of Harbin Medical University, Harbin 150001, People’s Republic of ChinaDiabetic nephropathy (DN) is a common and serious complication of diabetes, contributing significantly to patient mortality. Complication of DN (CDN) ranks as the second leading cause of end-stage renal disease globally. To address this, understanding the genetic regulation underlying DN is crucial for personalized treatment strategies. In this study, we identified genes and lncRNAs associated with diabetes and diabetic nephropathy constructing a DN-related lncRNA–mRNA network (DNLMN). This network, characterized by scale-free biomolecular properties, generated through the study of topological properties, elucidates key regulatory interactions. Enrichment analysis of important network modules revealed critical biological processes and pathways involved in DN pathogenesis. In the second step, we investigated the differential expression and co-expression of hub nodes in diseased and normal individuals, identifying lncRNA-mRNA relationships implicated in disease regulation. Finally, we gathered DN-related single nucleotide polymorphisms (SNPs) and lncRNAs from the LincSNP 3.0 database. The DNLMN encompasses SNP-associated lncRNAs, and transcription factors (TFs) linked to differentially expressed lncRNAs between diseased and normal samples. These results underscore the significance of biomolecular networks in disease progression and highlighting the role of biomolecular variability contributes to personalized disease phenotyping and treatment.https://www.jstage.jst.go.jp/article/endocrj/71/11/71_EJ24-0170/_html/-char/endiabetic nephropathybiomolecular networkcomplex diseasediabetesomics data |
| spellingShingle | Zi-Han Wang Qi Dong Qian Yan Wan-Rong Yu Dan-Dan Zhang Ran Yi Constructing the biomolecular networks associated with diabetic nephropathy and dissecting the effects of biomolecule variation underlying pathogenesis Endocrine Journal diabetic nephropathy biomolecular network complex disease diabetes omics data |
| title | Constructing the biomolecular networks associated with diabetic nephropathy and dissecting the effects of biomolecule variation underlying pathogenesis |
| title_full | Constructing the biomolecular networks associated with diabetic nephropathy and dissecting the effects of biomolecule variation underlying pathogenesis |
| title_fullStr | Constructing the biomolecular networks associated with diabetic nephropathy and dissecting the effects of biomolecule variation underlying pathogenesis |
| title_full_unstemmed | Constructing the biomolecular networks associated with diabetic nephropathy and dissecting the effects of biomolecule variation underlying pathogenesis |
| title_short | Constructing the biomolecular networks associated with diabetic nephropathy and dissecting the effects of biomolecule variation underlying pathogenesis |
| title_sort | constructing the biomolecular networks associated with diabetic nephropathy and dissecting the effects of biomolecule variation underlying pathogenesis |
| topic | diabetic nephropathy biomolecular network complex disease diabetes omics data |
| url | https://www.jstage.jst.go.jp/article/endocrj/71/11/71_EJ24-0170/_html/-char/en |
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