DNA methylation analysis with methylation‐sensitive high‐resolution melting (MS‐HRM) reveals gene panel for glioma characteristics

Majchrzak‐Celińska, Aleksandra; Dybska, Emilia; Barciszewska, Anna‐Maria

doi:10.1111/cns.13443

Cited by 21 publications

(18 citation statements)

References 61 publications

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“…Epigenetic modification of DNA methylation has been reported in a large number of studies on glioma. Numerous cell cycle control genes, DNA damage repair genes, and tumor invasionrelated genes are methylated in their promoter regions, which leads to changes in the biological functions of glioma cells (19)(20)(21). Studies have shown that the IDH1/2 mutations is closely associated with DNA methylation in gliomas genomes (22).…”

Section: Introductionmentioning

confidence: 99%

A Signature of Nine lncRNA Methylated Genes Predicts Survival in Patients With Glioma

et al. 2021

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Glioma is one of the most common malignant tumors of the central nervous system, and its prognosis is extremely poor. Aberrant methylation of lncRNA promoter region is significantly associated with the prognosis of glioma patients. In this study, we investigated the potential impact of methylation of lncRNA promoter region in glioma patients to establish a signature of nine lncRNA methylated genes for determining glioma patient prognosis. Methylation data and clinical follow-up data were obtained from The Cancer Genome Atlas (TCGA). The multistep screening strategy identified nine lncRNA methylated genes that were significantly associated with the overall survival (OS) of glioma patients. Subsequently, we constructed a risk signature that containing nine lncRNA methylated genes. The risk signature successfully divided the glioma patients into high-risk and low-risk groups. Compared with the low-risk group, the high-risk group had a worse prognosis, higher glioma grade, and older age. Furthermore, we identified two lncRNAs termed PCBP1-AS1 and LINC02875 that may be involved in the malignant progression of glioma cells by using the TCGA database. Loss-of-function assays confirmed that knockdown of PCBP1-AS1 and LINC02875 inhibited the proliferation, migration, and invasion of glioma cells. Therefore, the nine lncRNA methylated genes signature may provide a novel predictor and therapeutic target for glioma patients.

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Section: Introductionmentioning

confidence: 99%

A Signature of Nine lncRNA Methylated Genes Predicts Survival in Patients With Glioma

et al. 2021

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“…Of particular interest in this context are sex-bound disparities in the epigenetic regulation of glioma, and how they impact downstream gene expression. There is accumulating evidence that gliomas display sex-specific methylation patterns [ 10 , 11 ]. MGMT promoter methylation is more commonly found in females with GBM, with a subsequent better outcome after treatment with alkylating agent temozolomide (TMZ) [ 12 , 13 , 14 , 15 ].…”

Section: Introductionmentioning

confidence: 99%

Sex Disparities in MGMT Promoter Methylation and Survival in Glioblastoma: Further Evidence from Clinical Cohorts

Smits

Łysiak

Magnusson

et al. 2021

JCM

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Introduction: Recent studies suggest an overrepresentation of MGMT promoter methylated tumors in females with IDHwt glioblastoma (GBM) compared to males, with a subsequent better response to alkylating treatment. Methods: To reveal sex-bound associations that may have gone unnoticed in the original analysis, we re-analyzed two previously published clinical cohorts. One was the multicenter Nordic trial of elderly patients with GBM, randomizing patients into three different treatment arms, including 203 cases with known MGMT promoter methylation status. The other was a population-based study of 179 patients with IDHwt GBM, receiving concomittant radiotherapy and chemotherapy with temozolomide. Cohorts were stratified by sex to test the hypothesis that female sex in combination with MGMT promoter methylation constitutes a subgroup with more favorable outcome. Results: There was a significantly larger proportion of MGMT promoter methylation and better outcome for female patients with MGMT promoter methylated tumors. Results were confirmed in 257 TCGA-derived IDHwt GBM with known sex and MGMT status. Conclusions: These results confirm that patient sex in combination with MGMT promoter methylation is a key determinant in GBM to be considered prior to treatment decisions. Our study also illustrates the need for stratification to identify such sex-bound associations.

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“…This approach is semiquantitative if an unknown sample is compared with standards of known methylated vs unmethylated ratio [ 57 ]. Overall, MS-HRM offers a fast and relatively cost-effective estimation of methylation rate [ 50 ] and has a great use in the analysis of clinical samples [ 58 ].…”

Section: Standard Methods Of Analysismentioning

confidence: 99%

DNA Methylation in Solid Tumors: Functions and Methods of Detection

Martisova

Holcakova

Izadi

et al. 2021

IJMS

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DNA methylation, i.e., addition of methyl group to 5′-carbon of cytosine residues in CpG dinucleotides, is an important epigenetic modification regulating gene expression, and thus implied in many cellular processes. Deregulation of DNA methylation is strongly associated with onset of various diseases, including cancer. Here, we review how DNA methylation affects carcinogenesis process and give examples of solid tumors where aberrant DNA methylation is often present. We explain principles of methods developed for DNA methylation analysis at both single gene and whole genome level, based on (i) sodium bisulfite conversion, (ii) methylation-sensitive restriction enzymes, and (iii) interactions of 5-methylcytosine (5mC) with methyl-binding proteins or antibodies against 5mC. In addition to standard methods, we describe recent advances in next generation sequencing technologies applied to DNA methylation analysis, as well as in development of biosensors that represent their cheaper and faster alternatives. Most importantly, we highlight not only advantages, but also disadvantages and challenges of each method.

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DNA methylation analysis with methylation‐sensitive high‐resolution melting (MS‐HRM) reveals gene panel for glioma characteristics

Cited by 21 publications

References 61 publications

A Signature of Nine lncRNA Methylated Genes Predicts Survival in Patients With Glioma

A Signature of Nine lncRNA Methylated Genes Predicts Survival in Patients With Glioma

Sex Disparities in MGMT Promoter Methylation and Survival in Glioblastoma: Further Evidence from Clinical Cohorts

DNA Methylation in Solid Tumors: Functions and Methods of Detection

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