Identification of the H3K36me3 reader LEDGF/p75 in the pancancer landscape and functional exploration in clear cell renal cell carcinoma
Lens epithelium-derived growth factor (LEDGF/p75) is a reader of epigenetic marks and a potential target for therapeutic intervention. Its involvement in human immunodeficiency virus (HIV) integration and the development of leukemia driven by MLL (also known as KMT2A) gene fusion make it an attracti...
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| Format: | Article |
| Language: | English |
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Elsevier
2023-01-01
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| Series: | Computational and Structural Biotechnology Journal |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2001037023002982 |
| _version_ | 1797384108938100736 |
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| author | Yuwei Zhang Wei Guo Yangkun Feng Longfei Yang Hao Lin Pengcheng Zhou Kejie Zhao Lin Jiang Bing Yao Ninghan Feng |
| author_facet | Yuwei Zhang Wei Guo Yangkun Feng Longfei Yang Hao Lin Pengcheng Zhou Kejie Zhao Lin Jiang Bing Yao Ninghan Feng |
| author_sort | Yuwei Zhang |
| collection | DOAJ |
| description | Lens epithelium-derived growth factor (LEDGF/p75) is a reader of epigenetic marks and a potential target for therapeutic intervention. Its involvement in human immunodeficiency virus (HIV) integration and the development of leukemia driven by MLL (also known as KMT2A) gene fusion make it an attractive candidate for drug development. However, exploration of LEDGF/p75 as an epigenetic reader of H3K36me3 in tumors is limited. Here, for the first time, we analyze the role of LEDGF/p75 in multiple cancers via multiple online databases and in vitro experiments. We used pancancer bulk sequencing data and online tools to analyze correlations of LEDGF/p75 with prognosis, genomic instability, DNA damage repair, prognostic alternative splicing, protein interactions, and tumor immunity. In summary, the present study identified that LEDGF/p75 may serve as a prognostic predictor for tumors such as adrenocortical carcinoma, kidney chromophobe, liver hepatocellular carcinoma, pancreatic adenocarcinoma, skin cutaneous melanoma, and clear cell renal cell carcinoma (ccRCC). In addition, in vitro experiments and gene microarray sequencing were performed to explore the function of LEDGF/p75 in ccRCC, providing new insights into the pathogenesis of the nonmutated SETD2 ccRCC subtype. |
| first_indexed | 2024-03-08T21:30:44Z |
| format | Article |
| id | doaj.art-ff00265946ff49a0a10fc08a4f0b16e0 |
| institution | Directory Open Access Journal |
| issn | 2001-0370 |
| language | English |
| last_indexed | 2024-03-08T21:30:44Z |
| publishDate | 2023-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Computational and Structural Biotechnology Journal |
| spelling | doaj.art-ff00265946ff49a0a10fc08a4f0b16e02023-12-21T07:31:59ZengElsevierComputational and Structural Biotechnology Journal2001-03702023-01-012141344148Identification of the H3K36me3 reader LEDGF/p75 in the pancancer landscape and functional exploration in clear cell renal cell carcinomaYuwei Zhang0Wei Guo1Yangkun Feng2Longfei Yang3Hao Lin4Pengcheng Zhou5Kejie Zhao6Lin Jiang7Bing Yao8Ninghan Feng9Nantong University Medical School, Nantong, China; Department of Urology, Jiangnan University Medical Center, Wuxi, ChinaDepartment of Urology, Jiangnan University Medical Center, Wuxi, ChinaNantong University Medical School, Nantong, ChinaNantong University Medical School, Nantong, China; Department of Urology, Jiangnan University Medical Center, Wuxi, ChinaDepartment of Urology, Jiangnan University Medical Center, Wuxi, ChinaDepartment of Medical Genetics, Nanjing Medical University, Nanjing, ChinaDepartment of Medical Genetics, Nanjing Medical University, Nanjing, ChinaDepartment of Endocrinology and Metabolism, First Affiliated Hospital of Nanjing Medical University, Nanjing, China; Correspondence to: Department of Endocrinology and Metabolism, First Affiliated Hospital of Nanjing Medical University, 300 Guangzhou Road, Nanjing 210029, China.Department of Medical Genetics, Nanjing Medical University, Nanjing, China; Correspondence to: Department of Medical Genetics, Nanjing Medical University, 101 Longmian Road, Nanjing 211166, China.Nantong University Medical School, Nantong, China; Department of Urology, Jiangnan University Medical Center, Wuxi, China; Wuxi School of Medicine, Jiangnan University, Wuxi, China; Correspondence to: Nantong University Medical School, 9 Qiangyuan Road, Nantong 226019, China.Lens epithelium-derived growth factor (LEDGF/p75) is a reader of epigenetic marks and a potential target for therapeutic intervention. Its involvement in human immunodeficiency virus (HIV) integration and the development of leukemia driven by MLL (also known as KMT2A) gene fusion make it an attractive candidate for drug development. However, exploration of LEDGF/p75 as an epigenetic reader of H3K36me3 in tumors is limited. Here, for the first time, we analyze the role of LEDGF/p75 in multiple cancers via multiple online databases and in vitro experiments. We used pancancer bulk sequencing data and online tools to analyze correlations of LEDGF/p75 with prognosis, genomic instability, DNA damage repair, prognostic alternative splicing, protein interactions, and tumor immunity. In summary, the present study identified that LEDGF/p75 may serve as a prognostic predictor for tumors such as adrenocortical carcinoma, kidney chromophobe, liver hepatocellular carcinoma, pancreatic adenocarcinoma, skin cutaneous melanoma, and clear cell renal cell carcinoma (ccRCC). In addition, in vitro experiments and gene microarray sequencing were performed to explore the function of LEDGF/p75 in ccRCC, providing new insights into the pathogenesis of the nonmutated SETD2 ccRCC subtype.http://www.sciencedirect.com/science/article/pii/S2001037023002982LEDGF/p75H3K36me3PancancerSETD2Clear cell renal cell carcinoma |
| spellingShingle | Yuwei Zhang Wei Guo Yangkun Feng Longfei Yang Hao Lin Pengcheng Zhou Kejie Zhao Lin Jiang Bing Yao Ninghan Feng Identification of the H3K36me3 reader LEDGF/p75 in the pancancer landscape and functional exploration in clear cell renal cell carcinoma Computational and Structural Biotechnology Journal LEDGF/p75 H3K36me3 Pancancer SETD2 Clear cell renal cell carcinoma |
| title | Identification of the H3K36me3 reader LEDGF/p75 in the pancancer landscape and functional exploration in clear cell renal cell carcinoma |
| title_full | Identification of the H3K36me3 reader LEDGF/p75 in the pancancer landscape and functional exploration in clear cell renal cell carcinoma |
| title_fullStr | Identification of the H3K36me3 reader LEDGF/p75 in the pancancer landscape and functional exploration in clear cell renal cell carcinoma |
| title_full_unstemmed | Identification of the H3K36me3 reader LEDGF/p75 in the pancancer landscape and functional exploration in clear cell renal cell carcinoma |
| title_short | Identification of the H3K36me3 reader LEDGF/p75 in the pancancer landscape and functional exploration in clear cell renal cell carcinoma |
| title_sort | identification of the h3k36me3 reader ledgf p75 in the pancancer landscape and functional exploration in clear cell renal cell carcinoma |
| topic | LEDGF/p75 H3K36me3 Pancancer SETD2 Clear cell renal cell carcinoma |
| url | http://www.sciencedirect.com/science/article/pii/S2001037023002982 |
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