Literature DB >> 30120023

Epitranscriptomic Code and Its Alterations in Human Disease.

Rajashekar Varma Kadumuri1, Sarath Chandra Janga2.   

Abstract

Innovations in epitranscriptomics have resulted in the identification of more than 160 RNA modifications to date. These developments, together with the recent discovery of writers, readers, and erasers of modifications occurring across a wide range of RNAs and tissue types, have led to a surge in integrative approaches for transcriptome-wide mapping of modifications and protein-RNA interaction profiles of epitranscriptome players. RNA modification maps and crosstalk between them have begun to elucidate the role of modifications as signaling switches, entertaining the notion of an epitranscriptomic code as a driver of the post-transcriptional fate of RNA. Emerging single-molecule sequencing technologies and development of antibodies specific to various RNA modifications could enable charting of transcript-specific epitranscriptomic marks across cell types and their alterations in disease.
Copyright © 2018 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  RNA metabolism; RNA modifications; next-generation sequencing; post-transcriptional regulation; regulatory networks

Mesh:

Substances:

Year:  2018        PMID: 30120023      PMCID: PMC6168408          DOI: 10.1016/j.molmed.2018.07.010

Source DB:  PubMed          Journal:  Trends Mol Med        ISSN: 1471-4914            Impact factor:   11.951


  144 in total

1.  N(6)-methyladenosine Modulates Messenger RNA Translation Efficiency.

Authors:  Xiao Wang; Boxuan Simen Zhao; Ian A Roundtree; Zhike Lu; Dali Han; Honghui Ma; Xiaocheng Weng; Kai Chen; Hailing Shi; Chuan He
Journal:  Cell       Date:  2015-06-04       Impact factor: 41.582

2.  m(6)A RNA modification controls cell fate transition in mammalian embryonic stem cells.

Authors:  Pedro J Batista; Benoit Molinie; Jinkai Wang; Kun Qu; Jiajing Zhang; Lingjie Li; Donna M Bouley; Ernesto Lujan; Bahareh Haddad; Kaveh Daneshvar; Ava C Carter; Ryan A Flynn; Chan Zhou; Kok-Seong Lim; Peter Dedon; Marius Wernig; Alan C Mullen; Yi Xing; Cosmas C Giallourakis; Howard Y Chang
Journal:  Cell Stem Cell       Date:  2014-10-16       Impact factor: 24.633

3.  YTHDF3 facilitates translation and decay of N6-methyladenosine-modified RNA.

Authors:  Hailing Shi; Xiao Wang; Zhike Lu; Boxuan S Zhao; Honghui Ma; Phillip J Hsu; Chang Liu; Chuan He
Journal:  Cell Res       Date:  2017-01-20       Impact factor: 25.617

4.  High-resolution N(6) -methyladenosine (m(6) A) map using photo-crosslinking-assisted m(6) A sequencing.

Authors:  Kai Chen; Zhike Lu; Xiao Wang; Ye Fu; Guan-Zheng Luo; Nian Liu; Dali Han; Dan Dominissini; Qing Dai; Tao Pan; Chuan He
Journal:  Angew Chem Int Ed Engl       Date:  2014-12-09       Impact factor: 15.336

5.  The fat mass and obesity associated gene (Fto) regulates activity of the dopaminergic midbrain circuitry.

Authors:  Martin E Hess; Simon Hess; Kate D Meyer; Linda A W Verhagen; Linda Koch; Hella S Brönneke; Marcelo O Dietrich; Sabine D Jordan; Yogesh Saletore; Olivier Elemento; Bengt F Belgardt; Thomas Franz; Tamas L Horvath; Ulrich Rüther; Samie R Jaffrey; Peter Kloppenburg; Jens C Brüning
Journal:  Nat Neurosci       Date:  2013-06-30       Impact factor: 24.884

6.  Yeast m6A Methylated mRNAs Are Enriched on Translating Ribosomes during Meiosis, and under Rapamycin Treatment.

Authors:  Zsuzsanna Bodi; Andrew Bottley; Nathan Archer; Sean T May; Rupert G Fray
Journal:  PLoS One       Date:  2015-07-17       Impact factor: 3.240

7.  Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome.

Authors:  Bastian Linder; Anya V Grozhik; Anthony O Olarerin-George; Cem Meydan; Christopher E Mason; Samie R Jaffrey
Journal:  Nat Methods       Date:  2015-06-29       Impact factor: 28.547

8.  5-methylcytosine promotes mRNA export - NSUN2 as the methyltransferase and ALYREF as an m5C reader.

Authors:  Xin Yang; Ying Yang; Bao-Fa Sun; Yu-Sheng Chen; Jia-Wei Xu; Wei-Yi Lai; Ang Li; Xing Wang; Devi Prasad Bhattarai; Wen Xiao; Hui-Ying Sun; Qin Zhu; Hai-Li Ma; Samir Adhikari; Min Sun; Ya-Juan Hao; Bing Zhang; Chun-Min Huang; Niu Huang; Gui-Bin Jiang; Yong-Liang Zhao; Hai-Lin Wang; Ying-Pu Sun; Yun-Gui Yang
Journal:  Cell Res       Date:  2017-04-18       Impact factor: 25.617

9.  Cytosine-5 RNA Methylation Regulates Neural Stem Cell Differentiation and Motility.

Authors:  Joana V Flores; Lucía Cordero-Espinoza; Feride Oeztuerk-Winder; Amanda Andersson-Rolf; Tommaso Selmi; Sandra Blanco; Jignesh Tailor; Sabine Dietmann; Michaela Frye
Journal:  Stem Cell Reports       Date:  2016-12-29       Impact factor: 7.765

Review 10.  YTH Domain: A Family of N6-methyladenosine (m6A) Readers.

Authors:  Shanhui Liao; Hongbin Sun; Chao Xu
Journal:  Genomics Proteomics Bioinformatics       Date:  2018-04-30       Impact factor: 7.691

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  44 in total

1.  An Informatics Pipeline for Profiling and Annotating RNA Modifications.

Authors:  Qi Liu; Xiaoqiang Lang; Richard I Gregory
Journal:  Methods Mol Biol       Date:  2021

Review 2.  Clinical value of non-coding RNAs in cardiovascular, pulmonary, and muscle diseases.

Authors:  Sébastien Bonnet; Olivier Boucherat; Roxane Paulin; Danchen Wu; Charles C T Hindmarch; Stephen L Archer; Rui Song; Joseph B Moore; Steeve Provencher; Lubo Zhang; Shizuka Uchida
Journal:  Am J Physiol Cell Physiol       Date:  2019-09-04       Impact factor: 4.249

Review 3.  Hidden Aspects of Valency in Immune System Regulation.

Authors:  Parimal Samir; Thirumala-Devi Kanneganti
Journal:  Trends Immunol       Date:  2019-11-13       Impact factor: 16.687

Review 4.  Epitranscriptomic dynamics in brain development and disease.

Authors:  Andrew M Shafik; Emily G Allen; Peng Jin
Journal:  Mol Psychiatry       Date:  2022-04-26       Impact factor: 15.992

5.  Targeted Profiling of Epitranscriptomic Reader, Writer, and Eraser Proteins Accompanied with Radioresistance in Breast Cancer Cells.

Authors:  Tianyu F Qi; Weili Miao; Yinsheng Wang
Journal:  Anal Chem       Date:  2022-01-12       Impact factor: 6.986

Review 6.  The m6A epitranscriptome: transcriptome plasticity in brain development and function.

Authors:  Ido Livneh; Sharon Moshitch-Moshkovitz; Ninette Amariglio; Gideon Rechavi; Dan Dominissini
Journal:  Nat Rev Neurosci       Date:  2019-12-05       Impact factor: 34.870

Review 7.  Ubiquitous Chromatin Modifiers in Congenital Retinal Diseases: Implications for Disease Modeling and Regenerative Medicine.

Authors:  Brian W Basinski; Daniel A Balikov; Michael Aksu; Qiang Li; Rajesh C Rao
Journal:  Trends Mol Med       Date:  2021-02-08       Impact factor: 11.951

Review 8.  Transcriptome-wide identification of RNA-binding protein binding sites using seCLIP-seq.

Authors:  Steven M Blue; Brian A Yee; Gabriel A Pratt; Jasmine R Mueller; Samuel S Park; Alexander A Shishkin; Anne C Starner; Eric L Van Nostrand; Gene W Yeo
Journal:  Nat Protoc       Date:  2022-03-23       Impact factor: 13.491

Review 9.  From A to m6A: The Emerging Viral Epitranscriptome.

Authors:  Belinda Baquero-Perez; Daryl Geers; Juana Díez
Journal:  Viruses       Date:  2021-06-01       Impact factor: 5.048

Review 10.  The Role of N6 -Methyladenosine Modified Circular RNA in Pathophysiological Processes.

Authors:  Mei Tang; Yonggang Lv
Journal:  Int J Biol Sci       Date:  2021-06-01       Impact factor: 6.580

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