Journal ArticleDOI
A novel electrochemical immunosensor for the quantitative detection of 5-hydroxymethylcytosine in genomic DNA of breast cancer tissue
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TLDR
It is demonstrated that the levels of 5-hmC are dramatically reduced in human breast cancer tissue compared with those in normal tissue.About:
This article is published in Chemical Communications.The article was published on 2015-09-16. It has received 48 citations till now. The article focuses on the topics: Avidin & Cancer.read more
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Recent Advances in Electrochemical Immunosensors.
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Formation and repair of oxidatively generated damage in cellular DNA.
TL;DR: HPLC based methods are appropriate for monitoring oxidatively damage to DNA and the frequency of DNA lesions generated upon severe oxidizing conditions, including exposure to ionizing radiation is low, at best a few modifications per 106 normal bases.
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Electrochemical, electrochemiluminescent and photoelectrochemical bioanalysis of epigenetic modifiers: A comprehensive review
TL;DR: Electrochemical techniques for determining epigenetic biomarkers in last ten years are reviewed, in which the electrochemical techniques include electrochemistry, photoelectrochemistry and electrochemiluminescence, and the epigenetic modifiers contain DNA methylation, 5-methylcytosine and 7-methylguanine, DNA hydroxymethylation, DNA formylation, and RNA methylation.
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Ultrasensitive electrochemiluminescence immunosensor for 5-hydroxymethylcytosine detection based on Fe3O4@SiO2 nanoparticles and PAMAM dendrimers.
TL;DR: An ultrasensitive sandwiched electrochemiluminescence immunosensor was developed for 5-hydroxymethylcytosine detection in genomic DNA by using Fe3O4@SiO2 core-shell magnetic nanomaterial as a immobilization matrix for anti-5hmC antibody, PAMAM conjugated avidin and Ru(bpy)2(phen-5-NH2)(PF6)2 as signal amplification unit.
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DNA damage by oxidative stress: Measurement strategies for two genomes
TL;DR: Although the field has made great strides in describing oxidative DNA damage and improving the overall sensitivity of standard techniques, many questions are still unanswered and substantial technical challenges remain; differential quantification and description of DNA damage (mitochondrial vs. nuclear) continues to be a challenge and a priority going forward.
References
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Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1
Mamta Tahiliani,Kian Peng Koh,Yinghua Shen,William A. Pastor,Hozefa S. Bandukwala,Yevgeny Brudno,Suneet Agarwal,Lakshminarayan M. Iyer,David R. Liu,L. Aravind,Anjana Rao +10 more
TL;DR: It is shown here that TET1, a fusion partner of the MLL gene in acute myeloid leukemia, is a 2-oxoglutarate (2OG)- and Fe(II)-dependent enzyme that catalyzes conversion of 5mC to 5-hydroxymethylcytosine (hmC) in cultured cells and in vitro.
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The Nuclear DNA Base 5-Hydroxymethylcytosine Is Present in Purkinje Neurons and the Brain
TL;DR: It is shown that, as well as 5mC in mammalian genomes, there are also significant amounts of 5-hydroxymethylcytosine (5hmC) in DNA of Purkinje neurons, which have large nuclei with apparently very little heterochromatin.
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Tet-Mediated Formation of 5-Carboxylcytosine and Its Excision by TDG in Mammalian DNA
Yu-Fei He,Bin-Zhong Li,Zheng Li,Peng Liu,Yang Wang,Qingyu Tang,Jianping Ding,Yingying Jia,Zhangcheng Chen,Lin Li,Yan Sun,Xiuxue Li,Qing Dai,Chun-Xiao Song,Kangling Zhang,Chuan He,Guoliang Xu +16 more
TL;DR: It is demonstrated that 5mC and 5hmC in DNA are oxidized to 5-carboxylcytosine (5caC) by Tet dioxygenases in vitro and in cultured cells, suggesting that oxidation of 5m C by Tet proteins followed by TDG-mediated base excision of 5caC constitutes a pathway for active DNA demethylation.
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Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification
Shinsuke Ito,Ana C. D’Alessio,Ana C. D’Alessio,Olena Taranova,Olena Taranova,Kwonho Hong,Kwonho Hong,Lawrence C. Sowers,Yi Zhang,Yi Zhang +9 more
TL;DR: It is demonstrated that all three mouse Tet proteins (Tet1, Tet2 and Tet3) can also catalyse a similar reaction, uncover the enzymatic activity of the Tet proteins, and demonstrate a role for Tet1 in ES cell maintenance and inner cell mass cell specification.
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Direct detection of DNA methylation during single-molecule, real-time sequencing
Benjamin Flusberg,Dale R. Webster,Jessica Lee,Kevin Travers,Eric Olivares,Tyson A. Clark,Jonas Korlach,Stephen Turner +7 more
TL;DR: The direct detection of DNA methylation, without bisulfite conversion, through single-molecule, real-time (SMRT) sequencing is described and is amenable to long read lengths and will likely enable mapping of methylation patterns in even highly repetitive genomic regions.