Bioinformatics reveals TNFAIP6 as a candidate gene and suggests its potential crosstalk in the treatment of hemodialysis in chronic kidney disease
Hemodialysis (HD) is a life-sustaining treatment for chronic kidney disease (CKD) patients. This study aimed to identify candidate diagnostic biomarkers associated with HD-treated CKD. The public dataset was acquired from the Gene Expression Omnibus database. The differentially expressed genes (DEGs...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2025-12-01
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| Series: | Renal Failure |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/0886022X.2025.2528757 |
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| author | Guoxin Zhang Jieqiong Fu Wenming Niu |
| author_facet | Guoxin Zhang Jieqiong Fu Wenming Niu |
| author_sort | Guoxin Zhang |
| collection | DOAJ |
| description | Hemodialysis (HD) is a life-sustaining treatment for chronic kidney disease (CKD) patients. This study aimed to identify candidate diagnostic biomarkers associated with HD-treated CKD. The public dataset was acquired from the Gene Expression Omnibus database. The differentially expressed genes (DEGs) showing opposite trends across the three groups were obtained as crosstalk genes, and their potential pathways were explored through KEGG and GSEA analyses. Next, hub genes were identified using LASSO regression, and their diagnostic potential was assessed via ROC analysis. Key immune cell populations were identified using ssGSEA. Blood samples from healthy controls (n = 10), CKD patients (n = 9), and HD-treated CKD patients (n = 7) were collected to validate hub gene expression. A total of 132 crosstalk genes were identified, with the TGF-β and KRAS signaling pathways potentially activated in the HD group. Two hub genes, SIK1 and TNFAIP6, exhibited AUC values exceeding 0.8 for diagnosing CKD and HD-treated CKD groups. Compared to the other groups, neutrophil abundance was significantly higher in CKD group and showed a strong correlation with the hub genes. External datasets and RT-qPCR validated a consistent expression trend of TNFAIP6. Therefore, TNFAIP6 may represent a potential candidate gene with biomarker relevance in CKD and HD-treated CKD. TNFAIP6 has been previously associated with the TGF-β pathway and neutrophil regulation, and its crosstalk mechanism in HD-treated CKD warrants further exploration. |
| format | Article |
| id | doaj-art-c88a37a5cff8429f81fcb488f4d79bbe |
| institution | DOAJ |
| issn | 0886-022X 1525-6049 |
| language | English |
| publishDate | 2025-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Renal Failure |
| spelling | doaj-art-c88a37a5cff8429f81fcb488f4d79bbe2025-08-20T03:11:37ZengTaylor & Francis GroupRenal Failure0886-022X1525-60492025-12-0147110.1080/0886022X.2025.2528757Bioinformatics reveals TNFAIP6 as a candidate gene and suggests its potential crosstalk in the treatment of hemodialysis in chronic kidney diseaseGuoxin Zhang0Jieqiong Fu1Wenming Niu2Hemodialysis Room (Jianhua Clinic), Shijiazhuang, Hebei, ChinaHemodialysis Room (Jianhua Clinic), Shijiazhuang, Hebei, ChinaHemodialysis Room (Jianhua Clinic), Shijiazhuang, Hebei, ChinaHemodialysis (HD) is a life-sustaining treatment for chronic kidney disease (CKD) patients. This study aimed to identify candidate diagnostic biomarkers associated with HD-treated CKD. The public dataset was acquired from the Gene Expression Omnibus database. The differentially expressed genes (DEGs) showing opposite trends across the three groups were obtained as crosstalk genes, and their potential pathways were explored through KEGG and GSEA analyses. Next, hub genes were identified using LASSO regression, and their diagnostic potential was assessed via ROC analysis. Key immune cell populations were identified using ssGSEA. Blood samples from healthy controls (n = 10), CKD patients (n = 9), and HD-treated CKD patients (n = 7) were collected to validate hub gene expression. A total of 132 crosstalk genes were identified, with the TGF-β and KRAS signaling pathways potentially activated in the HD group. Two hub genes, SIK1 and TNFAIP6, exhibited AUC values exceeding 0.8 for diagnosing CKD and HD-treated CKD groups. Compared to the other groups, neutrophil abundance was significantly higher in CKD group and showed a strong correlation with the hub genes. External datasets and RT-qPCR validated a consistent expression trend of TNFAIP6. Therefore, TNFAIP6 may represent a potential candidate gene with biomarker relevance in CKD and HD-treated CKD. TNFAIP6 has been previously associated with the TGF-β pathway and neutrophil regulation, and its crosstalk mechanism in HD-treated CKD warrants further exploration.https://www.tandfonline.com/doi/10.1080/0886022X.2025.2528757Hemodialysischronic kidney diseasesKRAS signal pathwaysTGF-β signal pathwayhub gene |
| spellingShingle | Guoxin Zhang Jieqiong Fu Wenming Niu Bioinformatics reveals TNFAIP6 as a candidate gene and suggests its potential crosstalk in the treatment of hemodialysis in chronic kidney disease Renal Failure Hemodialysis chronic kidney diseases KRAS signal pathways TGF-β signal pathway hub gene |
| title | Bioinformatics reveals TNFAIP6 as a candidate gene and suggests its potential crosstalk in the treatment of hemodialysis in chronic kidney disease |
| title_full | Bioinformatics reveals TNFAIP6 as a candidate gene and suggests its potential crosstalk in the treatment of hemodialysis in chronic kidney disease |
| title_fullStr | Bioinformatics reveals TNFAIP6 as a candidate gene and suggests its potential crosstalk in the treatment of hemodialysis in chronic kidney disease |
| title_full_unstemmed | Bioinformatics reveals TNFAIP6 as a candidate gene and suggests its potential crosstalk in the treatment of hemodialysis in chronic kidney disease |
| title_short | Bioinformatics reveals TNFAIP6 as a candidate gene and suggests its potential crosstalk in the treatment of hemodialysis in chronic kidney disease |
| title_sort | bioinformatics reveals tnfaip6 as a candidate gene and suggests its potential crosstalk in the treatment of hemodialysis in chronic kidney disease |
| topic | Hemodialysis chronic kidney diseases KRAS signal pathways TGF-β signal pathway hub gene |
| url | https://www.tandfonline.com/doi/10.1080/0886022X.2025.2528757 |
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