Rapid and reliable detection of LINE-1 hypomethylation using high-resolution melting analysis

Stanzer, Stefanie; Balić, Marija; Strutz, Jasmin; Heitzer, Ellen; Obermair, Florian; Hauser‐Kronberger, Cornelia; Samonigg, Hellmut; Dandachi, Nadia

doi:10.1016/j.clinbiochem.2010.09.013

Cited by 21 publications

(23 citation statements)

References 24 publications

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“…Combined probability tests returned a Prognostic studies Ten studies investigated the association between global DNA methylation levels in PCa tissue and survival, 69 disease recurrence 65 and/or at least one clinicopathological prognostic factor. 24,45,56,[62][63][64][65][66][67]69,72 Their characteristics are summarized in Table 4 and Figure 3.…”

Section: Characteristics Of Eligible Studiesmentioning

confidence: 99%

“…One study containing prognostic information was excluded because of overlapping samples 66 with Florl et al 45 Thus, in total, we retained 15 studies, of which 6 had both diagnostic and prognostic information, 24,56,62,65,67,69 5 had only diagnostic information 55,68,70,71,73 and 4 had only prognostic information. 45,63,64,72 The studies were highly heterogeneous, in particular in the type of tissue analyzed and in the molecular techniques used to assess global DNA methylation (Table 1). Molecular techniques included high-performance liquid chromatography, antibody immunostain densitometry, high-pressure liquid chromatography-tandem mass spectrometry, Southern blot hybridization, combined bisulfite restriction analysis (COBRA) assay, realtime PCR-based methylation-specific assay (MethyLight assay), combination of methylated DNA precipitation and restriction enzyme digestion assay (COMPARE assay) and pyrosequencing.…”

Section: Characteristics Of Eligible Studiesmentioning

confidence: 99%

“…After excluding 1150 studies that did not meet the inclusion criteria, and 3 studies because the analysis was not performed on human samples, 16 diagnostic and/or prognostic studies were retained 24,45,55,56,[62][63][64][65][66][67][68][69][70][71][72][73] ( Figure 1). Screening of the 16 relevant articles' reference lists yielded no additional studies.…”

Section: Characteristics Of Eligible Studiesmentioning

confidence: 99%

See 2 more Smart Citations

Global DNA hypomethylation in prostate cancer development and progression: a systematic review

Zelić

Fiano

Grasso

et al. 2014

Prostate Cancer Prostatic Dis

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Section: Characteristics Of Eligible Studiesmentioning

confidence: 99%

Section: Characteristics Of Eligible Studiesmentioning

confidence: 99%

Section: Characteristics Of Eligible Studiesmentioning

confidence: 99%

See 1 more Smart Citation

Global DNA hypomethylation in prostate cancer development and progression: a systematic review

Zelić

Fiano

Grasso

et al. 2014

Prostate Cancer Prostatic Dis

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“…EpiTect HRM PCR kit in a RotorGene®Q cycler (Qiagen) was used. Briefly, methylation standards were constructed by diluting 100% methylated and unmethylated control DNA (Qiagen) at 100, 75, 50, 25, 10 and 0% ratios (22). Prior to analysis of patient material, MS-HRM assays were tested on these standards for efficient amplification and linearity (Supplementary Figure S1, available at Carcinogenesis Online).…”

Section: Methylation-sensitive High Resolution Melting Analysis and Bmentioning

confidence: 99%

Genome-wide CpG island methylation analyses in non-small cell lung cancer patients

Heller¹,

Babinsky²,

Ziegler³

et al. 2012

Carcinogenesis

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DNA methylation is part of the epigenetic gene regulation complex, which is relevant for the pathogenesis of cancer. We performed a genome-wide search for methylated CpG islands in tumors and corresponding non-malignant lung tissue samples of 101 stages I-III non-small cell lung cancer (NSCLC) patients by combining methylated DNA immunoprecipitation and microarray analysis. Overall, we identified 2414 genomic positions differentially methylated between tumor and non-malignant lung tissue samples. Ninety-seven percent of them were found to be tumor-specifically methylated. Annotation of these genomic positions resulted in the identification of 477 tumor-specifically methylated genes of which many are involved in regulation of gene transcription and cell adhesion. Tumor-specific methylation was confirmed by a gene-specific approach. In the majority of tumors, methylation of certain genes was associated with loss of their protein expression determined by immunohistochemistry. Treatment of NSCLC cells with epigenetically active drugs resulted in upregulated expression of many tumor-specifically methylated genes analyzed by gene expression microarrays suggesting that about one-third of these genes are transcriptionally regulated by methylation. Moreover, comparison of methylation results with certain clinicopathological characteristics of the patients suggests that methylation of HOXA2 and HOXA10 may be of prognostic relevance in squamous cell carcinoma (SCC) patients. In conclusion, we identified a large number of tumorspecifically methylated genes in NSCLC patients. Expression of many of them is regulated by methylation. Moreover, HOXA2 and HOXA10 methylation may serve as prognostic parameters in SCC patients. Overall, our findings emphasize the impact of methylation on the pathogenesis of NSCLCs.

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“…We have recently conducted a systematic review of studies on prostatic tumor global hypomethylation and prostate cancer progression: 19 although studies were heterogeneous and mostly based on a limited sample size, global hypomethylation was reported to be associated with high Gleason score, advanced tumor stage, high pre-operative PSA, and presence of metastasis. [20][21][22][23][24][25][26] The genome-wide methylation level of the long interspersed nuclear element-1 (LINE-1) is considered as a good surrogate marker for global methylation, [27][28][29] as LINE-1 is widely interspersed and represents about 15% of human genome. 30,31 Thus, in the present study we have analyzed prostate tissue LINE-1 methylation status in a cohort of prostate cancer patients in association with Gleason score, gene-specific hypermethylation, and mortality from prostate cancer.…”

Section: Introductionmentioning

confidence: 99%

LINE-1 methylation status in prostate cancer and non-neoplastic tissue adjacent to tumor in association with mortality

et al. 2016

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Aberrant DNA methylation seems to be associated with prostate cancer behavior. We investigated LINE-1 methylation in prostate cancer and non-neoplastic tissue adjacent to tumor (NTAT) in association with mortality from prostate cancer. We selected 157 prostate cancer patients with available NTAT from 2 cohorts of patients diagnosed between 1982-1988 and 1993-1996, followed up until 2010. An association between LINE-1 hypomethylation and prostate cancer mortality in tumor was suggested [hazard ratio per 5% decrease in LINE-1 methylation levels: 1.40, 95% confidence interval (CI): 0.95-2.01]. After stratification of the patients for Gleason score, the association was present only for those with a Gleason score of at least 8. Among these, low (<75%) vs. high (>80%) LINE-1 methylation was associated with a hazard ratio of 4.68 (95% CI: 1.03-21.34). LINE-1 methylation in the NTAT was not associated with prostate cancer mortality. Our results are consistent with the hypothesis that tumor tissue global hypomethylation may be a late event in prostate cancerogenesis and is associated with tumor progression.Abbreviations: NTAT, non-neoplastic tissue adjacent to tumor; LINE-1, long interspersed nuclear element-1; PIN, prostatic intraepithelial neoplasia; APC, adenomatous polyposis coli; GSTP1, glutathione S-transferase 1; TURP, transurethral resection of the prostate; HR, hazard ratio; CI, confidence interval; MAR, missing at random

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Rapid and reliable detection of LINE-1 hypomethylation using high-resolution melting analysis

Cited by 21 publications

References 24 publications

Global DNA hypomethylation in prostate cancer development and progression: a systematic review

Global DNA hypomethylation in prostate cancer development and progression: a systematic review

Genome-wide CpG island methylation analyses in non-small cell lung cancer patients

LINE-1 methylation status in prostate cancer and non-neoplastic tissue adjacent to tumor in association with mortality

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