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   Articles with "base resolution" as a keyword



High‐throughput detection of RNA modifications at single base resolution

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recommendations! Published in 2024 at "Febs Letters"

DOI: 10.1002/1873-3468.15052

Abstract: RNA is modified by > 170 chemical modifications that affect its structure and function. Accordingly, RNA modifications have been implicated in regulation of gene expression and cellular outcomes in a variety of species spanning the phylogenetic… read more here.

Keywords: high throughput; base resolution; single base; rna ... See more keywords

Selective Chemical Labeling and Sequencing of 5-Carboxylcytosine in DNA at Single-Base Resolution.

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recommendations! Published in 2020 at "Analytical chemistry"

DOI: 10.1021/acs.analchem.0c03201

Abstract: 5-Carboxylcytosine (5caC) plays a vital role in the dynamics of DNA demethylation, sequencing of its sites will help us dig out more biological functions of 5caC. Herein, we present a novel chemical method to efficiently… read more here.

Keywords: base resolution; chemical; single base; dna ... See more keywords

Ultrasensitive and Single-Base Resolution Quantification of 8-Oxo-7,8-dihydroguanine in DNA by Extension and Ligation-Based qPCR.

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recommendations! Published in 2022 at "Analytical chemistry"

DOI: 10.1021/acs.analchem.2c01679

Abstract: Oxidative DNA damage is tightly linked to the development of multiple age-related diseases. The prominent oxidation product is 8-oxo-7,8-dihydroguanine (OG), which has been proved to be an important epigenetic-like biomarker. Quantification of the locus-specific OG… read more here.

Keywords: base resolution; quantification; dna; oxo dihydroguanine ... See more keywords

Bisulfite-Free and Single-Base Resolution Detection of Epigenetic DNA Modification of 5-Methylcytosine by Methyltransferase-Directed Labeling with APOBEC3A Deamination Sequencing.

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recommendations! Published in 2022 at "Analytical chemistry"

DOI: 10.1021/acs.analchem.2c03808

Abstract: DNA methylation (5-methylcytosine, 5mC) is the most prevalent epigenetic modification that is predominantly found in CG dinucleotides in mammalian genomes. In-depth investigation of the functions of 5mC heavily relies on the quantitative measurement of 5mC… read more here.

Keywords: base resolution; dna; single base; mlad seq ... See more keywords

Bisulfite-Free and Quantitative Detection of DNA Methylation at Single-Base Resolution by eROS1-seq.

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recommendations! Published in 2024 at "Analytical chemistry"

DOI: 10.1021/acs.analchem.4c05030

Abstract: 5-Methylcytosine (5mC) is the most significant DNA modification present in mammalian genomes. Understanding the roles of 5mC in diverse biological processes requires quantitative detection at single-base resolution. In this study, we engineered the repressor of… read more here.

Keywords: detection; base resolution; quantitative detection; single base ... See more keywords

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

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recommendations! Published in 2020 at "Chemical communications"

DOI: 10.1039/d0cc04950f

Abstract: A highly reactive ylide tBuA was introduced, which could react rapidly with the 5-formyl and 4-amino groups of 5-formylcytosine (5fC) under mild conditions without any co-solvent or catalyst in a manner of Wittig olefination and… read more here.

Keywords: aqueous wittig; base resolution; single base; dna ... See more keywords

A bifunctional chemical signature enabling RNA 4-thiouridine enrichment sequencing with single-base resolution.

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recommendations! Published in 2022 at "Chemical communications"

DOI: 10.1039/d1cc06080e

Abstract: Both sequence enrichment and base resolution are essential for accurate sequencing analysis of low-abundance RNA. Yet they are hindered by the lack of molecular tools. Here we report a bifunctional chemical signature for RNA 4-thiouridine… read more here.

Keywords: base resolution; chemical signature; single base; enrichment ... See more keywords

Transcriptome-wide profiling of multiple RNA modifications simultaneously at single-base resolution

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recommendations! Published in 2019 at "Proceedings of the National Academy of Sciences of the United States of America"

DOI: 10.1073/pnas.1817334116

Abstract: Significance The field of RNA modification would be significantly advanced by the development of sensitive, accurate, single-base resolution methods for profiling multiple common RNA modifications in the same RNA molecule. Our work provides several advances… read more here.

Keywords: resolution; base resolution; rna modifications; base ... See more keywords

A bisulfite-assisted and ligation-based qPCR amplification technology for locus-specific pseudouridine detection at base resolution

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recommendations! Published in 2024 at "Nucleic Acids Research"

DOI: 10.1093/nar/gkae344

Abstract: Abstract Over 150 types of chemical modifications have been identified in RNA to date, with pseudouridine (Ψ) being one of the most prevalent modifications in RNA. Ψ plays vital roles in various biological processes, and… read more here.

Keywords: detection; base resolution; pseudouridine; pseu trace ... See more keywords

High-throughput sequencing of EcoWI restriction fragments maps the genome-wide landscape of phosphorothioate modification at base resolution

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recommendations! Published in 2022 at "PLoS Genetics"

DOI: 10.1371/journal.pgen.1010389

Abstract: Phosphorothioation (PT), in which a non-bridging oxygen is replaced by a sulfur, is one of the rare modifications discovered in bacteria and archaea that occurs on the sugar-phosphate backbone as opposed to the nucleobase moiety… read more here.

Keywords: base resolution; modification; ecowi seq; restriction ... See more keywords

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

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recommendations! Published in 2021 at "Frontiers in Genetics"

DOI: 10.3389/fgene.2021.749211

Abstract: 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… read more here.

Keywords: dna; single base; base resolution; selective chemical ... See more keywords