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Comprehensive analysis of somatic copy number alterations in clear cell renal cell carcinoma.
- Source :
-
Molecular carcinogenesis [Mol Carcinog] 2020 Apr; Vol. 59 (4), pp. 412-424. Date of Electronic Publication: 2020 Feb 10. - Publication Year :
- 2020
-
Abstract
- Somatic copy number alterations (SCNAs) are important biological characteristics that can identify genome-wide alterations in renal cell carcinoma (RCC). Recent studies have shown that SCNAs have potential value for determining the prognosis of RCC. We examined SCNAs using the Affymetrix platform to analyze samples from 59 patients with clear cell RCCs (ccRCCs) including first cohort (30 cases) and second cohort (validation cohort, 29 cases). We stratified SCNAs in the ccRCCs using a hierarchical cluster analysis based on SCNA types, including gain, loss of heterozygosity (LOH), copy neutral LOH, mosaic, and mixed types. In this way, the examined two cohorts were categorized into two subgroups (1 and 2). Although the frequency of mixed type was higher in subgroup 1 than in subgroup 2 in the two cohorts, the association did not reach statistical significance. There was a significant difference in the frequency of metachronous metastasis between subgroups 1 and 2 (subgroup 2 > 1). In addition, subgroup 2 was retained in multivariate analysis of both cohorts. We examined whether there were specific alleles differing between subgroups 1 and 2 in both cohorts. We found that there was indeed a statistically significant difference in the 3p mixed types. Among the 3p mixed type, we found that 3p24.3 mixed type was inversely correlated with the presence of metachronous metastasis in ccRCC. The association was also retained in multivariate analysis in second cohort. We suggest that the 3p24.3 mixed type may be a novel marker to predict a favorable prognosis in ccRCC.<br /> (© 2020 The Authors. Molecular Carcinogenesis published by Wiley Periodicals, Inc.)
- Subjects :
- Adult
Aged
Aged, 80 and over
Carcinoma, Renal Cell pathology
Cluster Analysis
Cohort Studies
Female
Humans
Kaplan-Meier Estimate
Kidney Neoplasms pathology
Male
Middle Aged
Multivariate Analysis
Polymorphism, Single Nucleotide
Prognosis
Carcinoma, Renal Cell genetics
DNA Copy Number Variations
Kidney Neoplasms genetics
Loss of Heterozygosity
Mutation
Subjects
Details
- Language :
- English
- ISSN :
- 1098-2744
- Volume :
- 59
- Issue :
- 4
- Database :
- MEDLINE
- Journal :
- Molecular carcinogenesis
- Publication Type :
- Academic Journal
- Accession number :
- 32039517
- Full Text :
- https://doi.org/10.1002/mc.23164