Metastasis-Specific CpG Island DNA Hypermethylation of the Long Non-Coding RNA Gene 00404 in Renal Cell Carcinoma
Simple Summary
Abstract
1. Introduction
2. Material and Methods
2.1. Study Design
2.2. Study Cohort
2.3. Preparation of DNA and DNA Methylation Analysis
2.4. Statistical Analysis
3. Results
3.1. Identification of Candidate Loci and Analysis of LINC00404/LINC00403 Associated CpG Island Methylation in Cell Line Models
3.2. Hypermethylation of the LINC00404 and LINC00403 CGI in Renal Cell Cancer
3.3. Hypermethylation of the LINC00404/LINC00403 CGI in Aggressive Primary Cancers
3.4. Qualitative and Quantitative Alterations of the LINC00404 and LINC00403 CGI Methylation in Metastatic Tissue
4. Discussion
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Locus | chr | pos | Rank | pVal | OR | mn0 | mn1 | fold |
---|---|---|---|---|---|---|---|---|
cg02742906 | chr13 | 112,758,625 | 11 | 5.12 × 10−9 | 28.15 | 0.20 | 0.45 | 2.30 |
cg15415452 | chr13 | 112,759,355 | 138 | 3.48 × 10−7 | 14.35 | 0.21 | 0.44 | 2.13 |
cg13692446 | chr13 | 112,759,719 | 89 | 6.93 × 10−8 | 27.37 | 0.21 | 0.44 | 2.09 |
Var | OR | conf.low | conf.high | p.value | sig | p.adj | sig.adj |
---|---|---|---|---|---|---|---|
PS_127-CG1 | 1.054 | 1.035 | 1.074 | 0.000000 | *** | 0.000000 | *** |
PS_127-CG2 | 1.056 | 1.038 | 1.075 | 0.000000 | *** | 0.000000 | *** |
PS_127-CG3 | 1.059 | 1.041 | 1.080 | 0.000000 | *** | 0.000000 | *** |
PS_127-CG4 | 1.058 | 1.039 | 1.078 | 0.000000 | *** | 0.000000 | *** |
PS_127-CG5 | 1.052 | 1.034 | 1.072 | 0.000000 | *** | 0.000000 | *** |
PS_127-CG6 | 1.057 | 1.039 | 1.077 | 0.000000 | *** | 0.000000 | *** |
PS_127-CG7 | 1.074 | 1.048 | 1.102 | 0.000000 | *** | 0.000000 | *** |
PS_128-CG1 | 1.048 | 1.030 | 1.068 | 0.000000 | *** | 0.000001 | *** |
PS_128-CG2 | 1.049 | 1.030 | 1.070 | 0.000001 | *** | 0.000007 | *** |
PS_128-CG3 | 1.045 | 1.028 | 1.063 | 0.000000 | *** | 0.000002 | *** |
PS_128-CG4 | 1.046 | 1.029 | 1.066 | 0.000000 | *** | 0.000002 | *** |
PS_128-CG5 | 1.050 | 1.030 | 1.072 | 0.000001 | *** | 0.000007 | *** |
PS_128-CG6 | 1.046 | 1.026 | 1.068 | 0.000013 | *** | 0.000064 | *** |
PS_124-CG6 | 1.040 | 1.019 | 1.063 | 0.000256 | *** | 0.001099 | ** |
PS_124-CG5 | 1.026 | 1.008 | 1.046 | 0.005993 | ** | 0.023398 | * |
PS_124-CG4 | 1.029 | 1.013 | 1.047 | 0.000681 | *** | 0.002787 | ** |
PS_124-CG3 | 1.019 | 1.003 | 1.035 | 0.020042 | * | 0.074842 | . |
PS_124-CG2 | 1.045 | 1.024 | 1.067 | 0.000038 | *** | 0.000172 | *** |
PS_124-CG1 | 1.064 | 1.039 | 1.092 | 0.000001 | *** | 0.000007 | *** |
PS_123-CG1 | 1.053 | 1.038 | 1.069 | 0.000000 | *** | 0.000000 | *** |
PS_123-CG2 | 1.051 | 1.036 | 1.067 | 0.000000 | *** | 0.000000 | *** |
PS_123-CG3 | 1.051 | 1.035 | 1.067 | 0.000000 | *** | 0.000000 | *** |
PS_123-CG4 | 1.059 | 1.041 | 1.079 | 0.000000 | *** | 0.000000 | *** |
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Faraj Tabrizi, P.; Schimansky, I.; Peters, I.; Hennenlotter, J.; Tezval, H.; Kuczyk, M.A.; Serth, J. Metastasis-Specific CpG Island DNA Hypermethylation of the Long Non-Coding RNA Gene 00404 in Renal Cell Carcinoma. Cancers 2025, 17, 2204. https://doi.org/10.3390/cancers17132204
Faraj Tabrizi P, Schimansky I, Peters I, Hennenlotter J, Tezval H, Kuczyk MA, Serth J. Metastasis-Specific CpG Island DNA Hypermethylation of the Long Non-Coding RNA Gene 00404 in Renal Cell Carcinoma. Cancers. 2025; 17(13):2204. https://doi.org/10.3390/cancers17132204
Chicago/Turabian StyleFaraj Tabrizi, Pouriya, Inga Schimansky, Inga Peters, Jörg Hennenlotter, Hossein Tezval, Markus Antonius Kuczyk, and Jürgen Serth. 2025. "Metastasis-Specific CpG Island DNA Hypermethylation of the Long Non-Coding RNA Gene 00404 in Renal Cell Carcinoma" Cancers 17, no. 13: 2204. https://doi.org/10.3390/cancers17132204
APA StyleFaraj Tabrizi, P., Schimansky, I., Peters, I., Hennenlotter, J., Tezval, H., Kuczyk, M. A., & Serth, J. (2025). Metastasis-Specific CpG Island DNA Hypermethylation of the Long Non-Coding RNA Gene 00404 in Renal Cell Carcinoma. Cancers, 17(13), 2204. https://doi.org/10.3390/cancers17132204