DNA Methylation and Its Basic Function
Lisa D Moore,Thuc Le,Guoping Fan +2 more
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TLDR
The investigation into DNA methylation continues to show a rich and complex picture about epigenetic gene regulation in the central nervous system and provides possible therapeutic targets for the treatment of neuropsychiatric disorders.About:
This article is published in Neuropsychopharmacology.The article was published on 2013-01-01 and is currently open access. It has received 2399 citations till now. The article focuses on the topics: RNA-Directed DNA Methylation & DNA methylation.read more
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Bis(2-ethylhexyl)-2,3,4,5-tetrabromophthalate Affects Lipid Metabolism in Zebrafish Larvae via DNA Methylation Modification.
TL;DR: The overall results suggest that both TBPH and TBMEHP affect methylation of the PPARγ promoter, subsequently influencing larvae lipid metabolism via the PParγ signaling pathway and disrupting energy homeostasis.
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Blood-based DNA Methylation Biomarkers for Early Detection of Colorectal Cancer
Lixin Dong,Hongmei Ren +1 more
TL;DR: Current knowledge on DNA methylation as potential blood-based biomarkers for early detection of CRC is focused on.
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DNA methylation of candidate genes in peripheral blood from patients with type 2 diabetes or the metabolic syndrome.
Sanne D. van Otterdijk,Sanne D. van Otterdijk,Alexandra M. Binder,Katarzyna Szarc vel Szic,Katarzyna Szarc vel Szic,Julia Schwald,Karin B. Michels,Karin B. Michels,Karin B. Michels +8 more
TL;DR: Altered levels of DNA methylation in PBLs of specific loci might serve as a biomarker for T2D or MetS, although further investigation is required.
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Epigenetic modifications in prostate cancer.
Masahiro Sugiura,Hiroaki Sato,Manato Kanesaka,Yusuke Imamura,Shinichi Sakamoto,Tomohiko Ichikawa,Atsushi Kaneda +6 more
TL;DR: An overview of epigenetic alterations in the development and progression of prostate cancer, focusing on deoxyribonucleic acid methylation and histone modifications is provided, and inhibitors targeting these epigenomic aberrations might be novel therapeutic strategies.
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Modeling gene regulatory networks using neural network architectures
TL;DR: DeepSEM as discussed by the authors is a deep generative model that can jointly infer gene regulatory networks and biologically meaningful representation of single-cell RNA sequencing (scRNA-seq) data, which can provide a useful and powerful tool to analyze scRNAseq data and infer a GRN.
References
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DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development.
TL;DR: It is demonstrated that two recently identified DNA methyltransferases, DnMT3a and Dnmt3b, are essential for de novo methylation and for mouse development and play important roles in normal development and disease.
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Epigenetic programming by maternal behavior.
Ian C. G. Weaver,Nadia Cervoni,Frances A. Champagne,Ana C. D'Alessio,Shakti Sharma,Jonathan R. Seckl,Sergiy Dymov,Moshe Szyf,Michael J. Meaney +8 more
TL;DR: It is shown that an epigenomic state of a gene can be established through behavioral programming, and it is potentially reversible, suggesting a causal relation among epigenomicState, GR expression and the maternal effect on stress responses in the offspring.
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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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Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-binding protein 2.
Ruthie E. Amir,Ignatia B. Van den Veyver,Mimi Wan,Charles Q. Tran,Uta Francke,Huda Y. Zoghbi +5 more
TL;DR: This study reports the first disease-causing mutations in RTT and points to abnormal epigenetic regulation as the mechanism underlying the pathogenesis of RTT.
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Human DNA methylomes at base resolution show widespread epigenomic differences
Ryan Lister,Mattia Pelizzola,Robert H. Dowen,R. David Hawkins,Gary C. Hon,Julian Tonti-Filippini,Joseph R. Nery,Leonard Lee,Zhen Ye,Que Minh Ngo,Lee Edsall,Jessica Antosiewicz-Bourget,Jessica Antosiewicz-Bourget,Ron Stewart,Ron Stewart,Victor Ruotti,Victor Ruotti,A. Harvey Millar,James A. Thomson,Bing Ren,Bing Ren,Joseph R. Ecker +21 more
TL;DR: The first genome-wide, single-base-resolution maps of methylated cytosines in a mammalian genome, from both human embryonic stem cells and fetal fibroblasts, along with comparative analysis of messenger RNA and small RNA components of the transcriptome, several histone modifications, and sites of DNA-protein interaction for several key regulatory factors were presented in this article.