Genomic Fabrics of the Excretory System’s Functional Pathways Remodeled in Clear Cell Renal Cell Carcinoma
Clear cell renal cell carcinoma (ccRCC) is the most frequent form of kidney cancer. Metastatic stages of ccRCC reduce the five-year survival rate to 15%. In this report, we analyze the ccRCC-induced remodeling of the five KEGG-constructed excretory functional pathways in a surgically removed right k...
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| Format: | Article |
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MDPI AG
2023-11-01
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| Series: | Current Issues in Molecular Biology |
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| Online Access: | https://www.mdpi.com/1467-3045/45/12/594 |
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| author | Dumitru Andrei Iacobas Ehiguese Alade Obiomon Sanda Iacobas |
| author_facet | Dumitru Andrei Iacobas Ehiguese Alade Obiomon Sanda Iacobas |
| author_sort | Dumitru Andrei Iacobas |
| collection | DOAJ |
| description | Clear cell renal cell carcinoma (ccRCC) is the most frequent form of kidney cancer. Metastatic stages of ccRCC reduce the five-year survival rate to 15%. In this report, we analyze the ccRCC-induced remodeling of the five KEGG-constructed excretory functional pathways in a surgically removed right kidney and its metastasis in the chest wall from the perspective of the Genomic Fabric Paradigm (GFP). The GFP characterizes every single gene in each region by these independent variables: the average expression level (AVE), relative expression variability (REV), and expression correlation (COR) with each other gene. While the traditional approach is limited to only AVE analysis, the novel REV analysis identifies the genes whose correct expression level is critical for cell survival and proliferation. The COR analysis determines the real gene networks responsible for functional pathways. The analyses covered the pathways for aldosterone-regulated sodium reabsorption, collecting duct acid secretion, endocrine and other factor-regulated sodium reabsorption, proximal tubule bicarbonate reclamation, and vasopressin-regulated water reabsorption. The present study confirms the conclusion of our previously published articles on prostate and kidney cancers that even equally graded cancer nodules from the same tumor have different transcriptomic topologies. Therefore, the personalization of anti-cancer therapy should go beyond the individual, to his/her major cancer nodules. |
| first_indexed | 2024-03-08T20:53:38Z |
| format | Article |
| id | doaj.art-5c1771a9a6664041b3ccb1f8ec367c2b |
| institution | Directory Open Access Journal |
| issn | 1467-3037 1467-3045 |
| language | English |
| last_indexed | 2024-03-08T20:53:38Z |
| publishDate | 2023-11-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Current Issues in Molecular Biology |
| spelling | doaj.art-5c1771a9a6664041b3ccb1f8ec367c2b2023-12-22T14:00:37ZengMDPI AGCurrent Issues in Molecular Biology1467-30371467-30452023-11-0145129471949910.3390/cimb45120594Genomic Fabrics of the Excretory System’s Functional Pathways Remodeled in Clear Cell Renal Cell CarcinomaDumitru Andrei Iacobas0Ehiguese Alade Obiomon1Sanda Iacobas2Personalized Genomics Laboratory, Undergraduate Medical Academy, Prairie View A&M University, Prairie View, TX 77446, USAPersonalized Genomics Laboratory, Undergraduate Medical Academy, Prairie View A&M University, Prairie View, TX 77446, USADepartment of Pathology, New York Medical College, Valhalla, NY 10595, USAClear cell renal cell carcinoma (ccRCC) is the most frequent form of kidney cancer. Metastatic stages of ccRCC reduce the five-year survival rate to 15%. In this report, we analyze the ccRCC-induced remodeling of the five KEGG-constructed excretory functional pathways in a surgically removed right kidney and its metastasis in the chest wall from the perspective of the Genomic Fabric Paradigm (GFP). The GFP characterizes every single gene in each region by these independent variables: the average expression level (AVE), relative expression variability (REV), and expression correlation (COR) with each other gene. While the traditional approach is limited to only AVE analysis, the novel REV analysis identifies the genes whose correct expression level is critical for cell survival and proliferation. The COR analysis determines the real gene networks responsible for functional pathways. The analyses covered the pathways for aldosterone-regulated sodium reabsorption, collecting duct acid secretion, endocrine and other factor-regulated sodium reabsorption, proximal tubule bicarbonate reclamation, and vasopressin-regulated water reabsorption. The present study confirms the conclusion of our previously published articles on prostate and kidney cancers that even equally graded cancer nodules from the same tumor have different transcriptomic topologies. Therefore, the personalization of anti-cancer therapy should go beyond the individual, to his/her major cancer nodules.https://www.mdpi.com/1467-3045/45/12/594<i>ADCY6</i>aldosterone-regulated sodium reabsorption<i>AP2A1</i><i>AVP</i>collecting duct acid secretion<i>CREB3L4</i> |
| spellingShingle | Dumitru Andrei Iacobas Ehiguese Alade Obiomon Sanda Iacobas Genomic Fabrics of the Excretory System’s Functional Pathways Remodeled in Clear Cell Renal Cell Carcinoma Current Issues in Molecular Biology <i>ADCY6</i> aldosterone-regulated sodium reabsorption <i>AP2A1</i> <i>AVP</i> collecting duct acid secretion <i>CREB3L4</i> |
| title | Genomic Fabrics of the Excretory System’s Functional Pathways Remodeled in Clear Cell Renal Cell Carcinoma |
| title_full | Genomic Fabrics of the Excretory System’s Functional Pathways Remodeled in Clear Cell Renal Cell Carcinoma |
| title_fullStr | Genomic Fabrics of the Excretory System’s Functional Pathways Remodeled in Clear Cell Renal Cell Carcinoma |
| title_full_unstemmed | Genomic Fabrics of the Excretory System’s Functional Pathways Remodeled in Clear Cell Renal Cell Carcinoma |
| title_short | Genomic Fabrics of the Excretory System’s Functional Pathways Remodeled in Clear Cell Renal Cell Carcinoma |
| title_sort | genomic fabrics of the excretory system s functional pathways remodeled in clear cell renal cell carcinoma |
| topic | <i>ADCY6</i> aldosterone-regulated sodium reabsorption <i>AP2A1</i> <i>AVP</i> collecting duct acid secretion <i>CREB3L4</i> |
| url | https://www.mdpi.com/1467-3045/45/12/594 |
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