Identification of CXCR4 as a potential preventive gene in clear cell renal cell carcinoma from machine learning and immune analysis
Abstract Clear cell renal cell carcinoma (ccRCC) represents a prevalent malignant kidney tumor characterized by high metastatic potential and recurrence rates. Investigations into the molecular mechanisms and therapeutic targets of ccRCC have provided novel directions for early diagnosis and targete...
Saved in:
| Main Authors: | , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2025-07-01
|
| Series: | Scientific Reports |
| Subjects: | |
| Online Access: | https://doi.org/10.1038/s41598-025-08199-5 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1849335362915139584 |
|---|---|
| author | Fengming Hu Xiao Wang Runsheng Wu Sihong Liu Hongli Liu Ranran Dai |
| author_facet | Fengming Hu Xiao Wang Runsheng Wu Sihong Liu Hongli Liu Ranran Dai |
| author_sort | Fengming Hu |
| collection | DOAJ |
| description | Abstract Clear cell renal cell carcinoma (ccRCC) represents a prevalent malignant kidney tumor characterized by high metastatic potential and recurrence rates. Investigations into the molecular mechanisms and therapeutic targets of ccRCC have provided novel directions for early diagnosis and targeted therapy. The CXCR4 gene plays a pivotal role in tumor progression and metastasis. In this study, this study first conducted differential analysis and WGCNA analysis on the dataset, and performed GO and KEGG analysis on the differentially expressed genes, revealing key biological processes and signaling pathways, particularly in cell adhesion and immune regulation. Based on WGCNA and cross genes of differentially expressed genes, 50 central genes were identified through PPI analysis. LASSO, SVM-RFE, and RF algorithms are used to identify the key gene CXCR4 associated with ccRCC. Survival analysis revealed that high CXCR4 expression correlates with poor patient prognosis. Immune analysis highlighted differences in immune cell distribution across ccRCC subtypes, emphasizing the importance of gene-immune interactions in disease pathogenesis. Finally, validation was conducted in vitro using techniques such as PCR and Western blot. Our findings position CXCR4 as a potential preventive gene, offering new theoretical insights for early diagnosis and targeted treatment of ccRCC. |
| format | Article |
| id | doaj-art-4dc51afb0f8745a5bf537c7f7f1649e2 |
| institution | Kabale University |
| issn | 2045-2322 |
| language | English |
| publishDate | 2025-07-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj-art-4dc51afb0f8745a5bf537c7f7f1649e22025-08-20T03:45:19ZengNature PortfolioScientific Reports2045-23222025-07-0115111410.1038/s41598-025-08199-5Identification of CXCR4 as a potential preventive gene in clear cell renal cell carcinoma from machine learning and immune analysisFengming Hu0Xiao Wang1Runsheng Wu2Sihong Liu3Hongli Liu4Ranran Dai5Department of Urology, Shenzhen Pingle Orthopedic Hospital (Shenzhen Pingshan Traditional Chinese Medicine Hospital)Department of Organ Transplantation, The Affiliated Guangdong Second Provincial General Hospital of Jinan UniversityDepartment of Urology, Shenzhen Pingle Orthopedic Hospital (Shenzhen Pingshan Traditional Chinese Medicine Hospital)Department of Urology, Huidong People’s HospitalDepartment of Nephrology, The Affiliated Guangdong Second Provincial General Hospital of Jinan UniversityDepartment of Urology, Shenzhen Pingle Orthopedic Hospital (Shenzhen Pingshan Traditional Chinese Medicine Hospital)Abstract Clear cell renal cell carcinoma (ccRCC) represents a prevalent malignant kidney tumor characterized by high metastatic potential and recurrence rates. Investigations into the molecular mechanisms and therapeutic targets of ccRCC have provided novel directions for early diagnosis and targeted therapy. The CXCR4 gene plays a pivotal role in tumor progression and metastasis. In this study, this study first conducted differential analysis and WGCNA analysis on the dataset, and performed GO and KEGG analysis on the differentially expressed genes, revealing key biological processes and signaling pathways, particularly in cell adhesion and immune regulation. Based on WGCNA and cross genes of differentially expressed genes, 50 central genes were identified through PPI analysis. LASSO, SVM-RFE, and RF algorithms are used to identify the key gene CXCR4 associated with ccRCC. Survival analysis revealed that high CXCR4 expression correlates with poor patient prognosis. Immune analysis highlighted differences in immune cell distribution across ccRCC subtypes, emphasizing the importance of gene-immune interactions in disease pathogenesis. Finally, validation was conducted in vitro using techniques such as PCR and Western blot. Our findings position CXCR4 as a potential preventive gene, offering new theoretical insights for early diagnosis and targeted treatment of ccRCC.https://doi.org/10.1038/s41598-025-08199-5Clear cell renal cell carcinomaMachine learningCXCR4Immune analysisBiomarker |
| spellingShingle | Fengming Hu Xiao Wang Runsheng Wu Sihong Liu Hongli Liu Ranran Dai Identification of CXCR4 as a potential preventive gene in clear cell renal cell carcinoma from machine learning and immune analysis Scientific Reports Clear cell renal cell carcinoma Machine learning CXCR4 Immune analysis Biomarker |
| title | Identification of CXCR4 as a potential preventive gene in clear cell renal cell carcinoma from machine learning and immune analysis |
| title_full | Identification of CXCR4 as a potential preventive gene in clear cell renal cell carcinoma from machine learning and immune analysis |
| title_fullStr | Identification of CXCR4 as a potential preventive gene in clear cell renal cell carcinoma from machine learning and immune analysis |
| title_full_unstemmed | Identification of CXCR4 as a potential preventive gene in clear cell renal cell carcinoma from machine learning and immune analysis |
| title_short | Identification of CXCR4 as a potential preventive gene in clear cell renal cell carcinoma from machine learning and immune analysis |
| title_sort | identification of cxcr4 as a potential preventive gene in clear cell renal cell carcinoma from machine learning and immune analysis |
| topic | Clear cell renal cell carcinoma Machine learning CXCR4 Immune analysis Biomarker |
| url | https://doi.org/10.1038/s41598-025-08199-5 |
| work_keys_str_mv | AT fengminghu identificationofcxcr4asapotentialpreventivegeneinclearcellrenalcellcarcinomafrommachinelearningandimmuneanalysis AT xiaowang identificationofcxcr4asapotentialpreventivegeneinclearcellrenalcellcarcinomafrommachinelearningandimmuneanalysis AT runshengwu identificationofcxcr4asapotentialpreventivegeneinclearcellrenalcellcarcinomafrommachinelearningandimmuneanalysis AT sihongliu identificationofcxcr4asapotentialpreventivegeneinclearcellrenalcellcarcinomafrommachinelearningandimmuneanalysis AT hongliliu identificationofcxcr4asapotentialpreventivegeneinclearcellrenalcellcarcinomafrommachinelearningandimmuneanalysis AT ranrandai identificationofcxcr4asapotentialpreventivegeneinclearcellrenalcellcarcinomafrommachinelearningandimmuneanalysis |