Hypermethylation of nc886 in HPV-positive oropharyngeal cancer and its clinical implications: An epigenome-wide association study

Xu, Yifan; Wang, Ziqiao; Wei, Peng; Gairola, Richa; Kelsey, Karl T.; Sikora, Andrew G.; Li, Guojun; Gu, Jian

doi:10.1016/j.omtn.2022.11.012

Cited by 4 publications

(5 citation statements)

References 71 publications

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“…Knocking out or down nc886 RNA expression has been shown to both induce apoptosis or suppress proliferation [ 25 , 28 , 44 , 85–88 , 91 , 93 , 104 ] and to promote cell division [ 105 ]. Similarly, overexpression of these RNAs has been shown to have both growth-promoting [ 85 , 86 , 91 , 93 , 106 ] and growth-restricting [ 9 , 54 , 95 , 99 , 103 , 107–109 ] properties.…”

Section: Nc886 and Cancermentioning

confidence: 99%

“…However, the original methylation pattern of the individual and tissues of origin, as well as the proportions of the methylation status groups in a population, should always be taken into account when interpreting the obtained results. For example, the findings from a cross-sectional study suggesting that the human papilloma virus is associated with similar changes in the nc886 methylation profile in both cancerous and healthy tissue could also be explained by different proportions of imprinted individuals in the case and control groups at baseline [ 104 ]. Due to the peculiar nature of nc886 methylation, longitudinal analyses would be exceptionally beneficial to determine its role in cancer progression.…”

Section: Nc886 and Cancermentioning

confidence: 99%

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Non-coding 886 ( nc886 / vtRNA2-1 ), the epigenetic odd duck – implications for future studies

Raitoharju,

Rajić,

Marttila

2024

Epigenetics

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Non-coding 886 ( nc886 , vtRNA2–1 ) is the only human polymorphically imprinted gene, in which the methylation status is not determined by genetics. Existing literature regarding the establishment, stability and consequences of the methylation pattern, as well as the nature and function of the nc886 RNAs transcribed from the locus, are contradictory. For example, the methylation status of the locus has been reported to be stable through life and across somatic tissues, but also susceptible to environmental effects. The nature of the produced nc886 RNA(s) has been redefined multiple times, and in carcinogenesis, these RNAs have been reported to have conflicting roles. In addition, due to the bimodal methylation pattern of the nc886 locus, traditional genome-wide methylation analyses can lead to false-positive results, especially in smaller datasets. Herein, we aim to summarize the existing literature regarding nc886 , discuss how the characteristics of nc886 give rise to contradictory results, as well as to reinterpret, reanalyse and, where possible, replicate the results presented in the current literature. We also introduce novel findings on how the distribution of the nc886 methylation pattern is associated with the geographical origins of the population and describe the methylation changes in a large variety of human tumours. Through the example of this one peculiar genetic locus and RNA, we aim to highlight issues in the analysis of DNA methylation and non-coding RNAs in general and offer our suggestions for what should be taken into consideration in future analyses.

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Section: Nc886 and Cancermentioning

confidence: 99%

Section: Nc886 and Cancermentioning

confidence: 99%

Non-coding 886 ( nc886 / vtRNA2-1 ), the epigenetic odd duck – implications for future studies

Raitoharju,

Rajić,

Marttila

2024

Epigenetics

View full text Add to dashboard Cite

show abstract

“…Knocking out or down the nc886 RNA expression has been shown to both induce apoptosis or suppress proliferation 25,31,[83][84][85][86]89,91,102 and promote cell division 103 . Similarly, overexpression of these RNAs has been shown to have both growth promoting 83,84,89,91,104 and restricting 9,52,93,97,101,[105][106][107] properties.…”

Section: Nc886 and Cancermentioning

confidence: 99%

“…For example, the findings from a cross-sectional study suggesting that human papilloma-virus is associated with similar changes in nc886 methylation profile in both the cancerous and the healthy tissue could also be explained by different proportions of imprinted individuals in case and control groups at baseline 102 . Due to the peculiar nature of nc886 methylation, longitudinal analyses would be exceptionally beneficial to determine its role in cancer progression.…”

Section: Nc886 and Cancermentioning

confidence: 99%

“…However, the original methylation pattern of the individual and tissues of origin, as well as the proportions of the methylation status groups in a population, should always be taken into account when interpreting the obtained results. For example, the findings from a cross-sectional study suggesting that human papilloma-virus is associated with similar changes in nc886 methylation profile in both the cancerous and the healthy tissue could also be explained by different proportions of imprinted individuals in case and control groups at baseline 102 . Due to the peculiar nature of nc886 methylation, longitudinal analyses would be exceptionally beneficial to determine its role in cancer progression.…”

Section: Introductionmentioning

confidence: 99%

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Non-coding 886 (nc886/vtRNA2-1), the epigenetic odd duck – implications for future studies

Raitoharju,

Rajić,

Marttila

2023

Preprint

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Non-coding 886 (nc886,VTRNA2-1) is the only human polymorphically imprinted gene, in which the methylation status is not determined by genetics. Existing literature regarding the establishment, stability, and consequences of the methylation pattern, as well as the nature and function of the nc886 RNAs transcribed from the locus, are contradictory. For example, the methylation status of the locus has been reported to be stable through life and across somatic tissues, but also susceptible to environmental effects. The nature of the produced nc886 RNAs has been redefined multiple times and are still under debate and in carcinogenesis, these RNAs have been reported to have conflicting roles. In addition, due to the bimodal methylation pattern of thenc886locus, traditional genome-wide methylation analyses can lead to false-positive results, especially in smaller datasets.Here, we aim to summarise the existing literature regardingnc886, discuss how the characteristics ofnc886give rise to contradictory results, and reinterpret, reanalyse and, where possible, replicate the results presented in the current literature. We also introduce novel findings on how thenc886methylation pattern distribution is associated with the geographical origins of the population and describe the methylation changes in a large variety of human tumours. Through the example of this one peculiar genetic locus and RNA, we aim to highlight issues in the analysis of DNA methylation and non-coding RNAs in general and offer our suggestions for what should be taken into consideration in future analyses.

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Progression Pathways of Human Papillomavirus-Associated Cancer

Velázquez-Márquez,

Velez-Haro

2024

Pathogens Associated With the Development of Cancer in Humans

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Hypermethylation of nc886 in HPV-positive oropharyngeal cancer and its clinical implications: An epigenome-wide association study

Cited by 4 publications

References 71 publications

Non-coding 886 ( nc886 / vtRNA2-1 ), the epigenetic odd duck – implications for future studies

Non-coding 886 ( nc886 / vtRNA2-1 ), the epigenetic odd duck – implications for future studies

Non-coding 886 (nc886/vtRNA2-1), the epigenetic odd duck – implications for future studies

Progression Pathways of Human Papillomavirus-Associated Cancer

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