DNA N6-methyladenine involvement and regulation of hepatocellular carcinoma development

Q, Lin; Yin, Hao; Li, Mingan; Zhou, Churen; Hao, Taofang; Wu, Chun; Li, Zhengran; Zhu, Duo; Wang, Haofan; Huang, Mingsheng

doi:10.1016/j.ygeno.2022.01.002

Cited by 20 publications

(20 citation statements)

References 36 publications

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“…On protein-coding regions methylation changes can be analyzed on the homocyclic groups composed by the cyclic group or (Fig 7c and d ). Notice that adenine methylation is found in humans as well and, usually, it plays a very specific regulatory role [43,44].…”

Section: Resultsmentioning

confidence: 99%

“…Both gene models, from panel a and b, share a common direct sum of Abelian 2-groups and 5-groups: Next, following analogous reasoning as in [19], it turns out that the set of base-triplets GTR is a coset  (Fig 7c and d). Notice that adenine methylation is found in humans as well and, usually, it plays a very specific regulatory role [38,39]. binding sites (in blue).…”

Section: Examples Of Genomic Regions Group Representationsmentioning

confidence: 99%

“…As shown in the clinical report [41]  (Fig 7c and d). Notice that adenine methylation is found in humans as well and, usually, it plays a very specific regulatory role [43,44]. binding sites (in blue).…”

Section: Examples Of Genomic Regions Group Representationsmentioning

confidence: 99%

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Genomic Abelian Finite Groups

Sanchez

2021

Preprint

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Experimental studies reveal that genome architecture splits into natural domains suggesting a well-structured genomic architecture, where, for each species, genome populations are integrated by individual mutational variants. Herein, we show that the architecture of population genomes from the same or closed related species can be quantitatively represented in terms of the direct sum of homocyclic abelian groups defined on the genetic code, where populations from the same species lead to the same canonical decomposition into p -groups. This finding unveils a new ground for the application of the abelian group theory to genomics and epigenomics, opening new horizons for the study of the biological processes (at genomic scale) and provides new lens for genomic medicine.

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Section: Resultsmentioning

confidence: 99%

Section: Examples Of Genomic Regions Group Representationsmentioning

confidence: 99%

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Genomic Abelian Finite Groups

Sanchez

2021

Preprint

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“…A similar pattern can be seen in a study of hepatocellular carcinoma (HCC). Overexpression of N6AMT1, a methyltransferase, increased levels of N6mA, resulting in increased HCC cell viability, decreased apoptosis, and enhanced ability to migrate and invade, whereas Frontiers in Oncology frontiersin.org overexpression of ALKBH1 induced the opposite effect (117). Moreover, overexpression of ALKBH1 reversed the inhibitory effect of miRNA-339-5p, an upstream gene of ALKBH1, on the proliferation and migration ability of gastric cancer (GC) (118).…”

Section: Alkbh1mentioning

confidence: 99%

The role of demethylase AlkB homologs in cancer

Zhu

2023

Front. Oncol.

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The AlkB family (ALKBH1-8 and FTO), a member of the Fe (II)- and α-ketoglutarate-dependent dioxygenase superfamily, has shown the ability to catalyze the demethylation of a variety of substrates, including DNA, RNA, and histones. Methylation is one of the natural organisms’ most prevalent forms of epigenetic modifications. Methylation and demethylation processes on genetic material regulate gene transcription and expression. A wide variety of enzymes are involved in these processes. The methylation levels of DNA, RNA, and histones are highly conserved. Stable methylation levels at different stages can coordinate the regulation of gene expression, DNA repair, and DNA replication. Dynamic methylation changes are essential for the abilities of cell growth, differentiation, and division. In some malignancies, the methylation of DNA, RNA, and histones is frequently altered. To date, nine AlkB homologs as demethylases have been identified in numerous cancers’ biological processes. In this review, we summarize the latest advances in the research of the structures, enzymatic activities, and substrates of the AlkB homologs and the role of these nine homologs as demethylases in cancer genesis, progression, metastasis, and invasion. We provide some new directions for the AlkB homologs in cancer research. In addition, the AlkB family is expected to be a new target for tumor diagnosis and treatment.

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“…Although the low abundance of 6mA is observed in the mammalian genome under normal conditions, several studies indicated dynamic changes in 6mA levels during development and cancer. A lower abundance of the 6mA marker was observed in glioma cells ( Kweon et al, 2019 ), whereas an increased 6mA was shown in hepatocellular carcinoma ( Lin et al, 2022 ). A decrease of genomic DNA 6mA, accompanied by decreased methyltransferase N6AMT1 and increased demethylase ALKBH1 levels promotes tumorigenesis and is associated with poor prognosis in cancer patients ( Xiao et al, 2018 ).…”

Section: Introductionmentioning

confidence: 99%

Epigenetic reprogramming in cancer: From diagnosis to treatment

Costa

Sales

Pinheiro

et al. 2023

Front. Cell Dev. Biol.

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Disruption of the epigenetic program of gene expression is a hallmark of cancer that initiates and propagates tumorigenesis. Altered DNA methylation, histone modifications and ncRNAs expression are a feature of cancer cells. The dynamic epigenetic changes during oncogenic transformation are related to tumor heterogeneity, unlimited self-renewal and multi-lineage differentiation. This stem cell-like state or the aberrant reprogramming of cancer stem cells is the major challenge in treatment and drug resistance. Given the reversible nature of epigenetic modifications, the ability to restore the cancer epigenome through the inhibition of the epigenetic modifiers is a promising therapy for cancer treatment, either as a monotherapy or in combination with other anticancer therapies, including immunotherapies. Herein, we highlighted the main epigenetic alterations, their potential as a biomarker for early diagnosis and the epigenetic therapies approved for cancer treatment.

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DNA N6-methyladenine involvement and regulation of hepatocellular carcinoma development

Cited by 20 publications

References 36 publications

Genomic Abelian Finite Groups

Genomic Abelian Finite Groups

The role of demethylase AlkB homologs in cancer

Epigenetic reprogramming in cancer: From diagnosis to treatment

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