Xeno nucleic acid probes mediated methylation-specific PCR for single-base resolution analysis of N6-methyladenosine in RNAs

The Analyst ◽  
2021 ◽  
Author(s):  
Qinli Pu ◽  
Hongyan Yu ◽  
Xi Zhou ◽  
Junjie Li ◽  
Yu-Jun Yang ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Gene Locus ◽  
Cost Effective ◽  
Specific Gene ◽  
Rna Modifications ◽  
Nucleic Acid Probes ◽  
Single Base ◽  
Specific Pcr ◽  
Resolution Analysis ◽  
Single Base Resolution

Reliable and cost-effective quantification of RNA modifications at a specific gene locus is essential to elucidate the pathogenic mechanism encoded by RNA epigenetics. Current methods to quantify N6-methyladenosine (m6A) at...

scholarly journals Gene specific-loci quantitative and single-base resolution analysis of 5-formylcytosine by compound-mediated polymerase chain reaction

2018 ◽  
Vol 9 (15) ◽  
pp. 3723-3728 ◽  
Author(s):  
Yafen Wang ◽  
Chaoxing Liu ◽  
Xiong Zhang ◽  
Wei Yang ◽  
Fan Wu ◽  
...  
Keyword(s):  
Polymerase Chain Reaction ◽  
Dna Demethylation ◽  
Chain Reaction ◽  
Single Base ◽  
Active Dna Demethylation ◽  
Key Players ◽  
Resolution Analysis ◽  
Single Base Resolution ◽  
Polymerase Chain

5-Formylcytosine (5fC) is known as one of the key players in the process of active DNA demethylation and displays essential epigenetic functions in mammals.

scholarly journals MBRidge: an accurate and cost-effective method for profiling DNA methylome at single-base resolution

2015 ◽  
Vol 7 (4) ◽  
pp. 299-313 ◽  
Author(s):  
Wanshi Cai ◽  
Fengbiao Mao ◽  
Huajing Teng ◽  
Tao Cai ◽  
Fangqing Zhao ◽  
...  
Keyword(s):  
Cost Effective ◽  
Single Base ◽  
Dna Methylome ◽  
Cost Effective Method ◽  
Single Base Resolution

scholarly journals Selective Chemical Labeling and Sequencing of 5-Hydroxymethylcytosine in DNA at Single-Base Resolution

2021 ◽  
Vol 12 ◽  
Author(s):  
Xiaogang Li ◽  
Xinxin Shi ◽  
Yin Gong ◽  
Wenting Guo ◽  
Yuanrui Liu ◽  
...  
Keyword(s):  
Embryonic Stem ◽  
Cost Effective ◽  
Chemical Labeling ◽  
Whole Genome Analysis ◽  
Single Base ◽  
Chemically Modified ◽  
Sequencing Method ◽  
Single Base Resolution ◽  
Selective Chemical ◽  
Apobec Family

5-Hydroxymethylcytosine (5hmC), the oxidative product of 5-methylcytosine (5mC) catalyzed by ten-eleven translocation enzymes, plays an important role in many biological processes as an epigenetic mediator. Prior studies have shown that 5hmC can be selectively labeled with chemically modified glucose moieties and enriched using click chemistry with biotin affinity approaches. Besides, DNA deaminases of the AID/APOBEC family can discriminate modified 5hmC bases from cytosine (C) or 5mC. Herein, we developed a method based on embryonic stem cell (ESC) whole-genome analysis, which could enrich 5hmC-containing DNA by selective chemical labeling and locate 5hmC sites at single-base resolution with enzyme-based deamination. The combination experimental design is an extension of previous methods, and we hope that this cost-effective single-base resolution 5hmC sequencing method could be used to promote the mechanism and diagnosis research of 5hmC.

Quantification and Single-Base Resolution Analysis of N1-Methyladenosine in mRNA by Ligation-Assisted Differentiation

2020 ◽  
Vol 92 (3) ◽  
pp. 2612-2619 ◽  
Author(s):  
Jiang-Hui Ding ◽  
Cheng-Jie Ma ◽  
Meng-Yuan Chen ◽  
Bei Chen ◽  
Bi-Feng Yuan ◽  
...  
Keyword(s):  
Single Base ◽  
Resolution Analysis ◽  
Single Base Resolution

Aqueous Wittig reaction-mediated fast fluorogenic identification and single-base resolution analysis of 5-formylcytosine in DNA

2020 ◽  
Vol 56 (81) ◽  
pp. 12158-12161
Author(s):  
Qian Zhou ◽  
Kun Li ◽  
Kang-Kang Yu ◽  
Na Li ◽  
Lei Shi ◽  
...  
Keyword(s):  
Nucleic Acids ◽  
Wittig Reaction ◽  
Single Base ◽  
Mild Conditions ◽  
Resolution Analysis ◽  
Single Base Resolution ◽  
Wittig Reactions

Aqueous Wittig reactions in nucleic acids under mild conditions for fluorogenic identification of 5fC and single-base resolution sequencing were studied.

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