5-methylcytosine promotes mRNA export — NSUN2 as the methyltransferase and ALYREF as an m5C reader
暂无分享,去创建一个
Samir Adhikari | Niu Huang | Yun-Gui Yang | Qin Zhu | Bao-Fa Sun | Bing Zhang | N. Huang | Yu-Sheng Chen | Yun-Gui Yang | Ang Li | Bao-Fa Sun | Ying Yang | Hai-Lin Wang | Yong-Liang Zhao | Xin Yang | Jia-Wei Xu | Wei-Yi Lai | Xing Wang | Devi Prasad Bhattarai | W. Xiao | Hui Sun | Qin Zhu | Hai-Li Ma | Samir Adhikari | Min Sun | Ya-Juan Hao | Bing Zhang | Chunmin Huang | Guibin Jiang | Ying-pu Sun | Min Sun | W. Lai | Huiying Sun | Ya-Juan Hao | Ang Li | Wei-Yi Lai | Hai-Lin Wang | Yu-Sheng Chen | Yong-Liang Zhao | Ying Yang | Wen Xiao | Xing Wang | Hai-Li Ma | Chun-Min Huang | Gui-Bin Jiang | Xin Yang | Jia-Wei Xu | Hui-Ying Sun | Min Sun | Ying-Pu Sun | Bing Zhang | Ying-pu Sun | Niu Huang | Ying-Pu Sun | Yun‐Gui Yang | Weiyi Lai | Yong‐Liang Zhao | Wen Xiao | Jiawei Xu
[1] D. Page,et al. Two closely related human nuclear export factors utilize entirely distinct export pathways. , 2001, Molecular cell.
[2] Jin Billy Li,et al. Accurate identification of human Alu and non-Alu RNA editing sites , 2012, Nature Methods.
[3] R. North,et al. Calcium dependent regulation of Rab activation and vesicle fusion by an intracellular P2X ion channel , 2013, Nature Cell Biology.
[4] O. Elemento,et al. Comprehensive Analysis of mRNA Methylation Reveals Enrichment in 3′ UTRs and near Stop Codons , 2012, Cell.
[5] Chuan He,et al. Nuclear m(6)A Reader YTHDC1 Regulates mRNA Splicing. , 2016, Trends in genetics : TIG.
[6] R. Gregory,et al. The m(6)A Methyltransferase METTL3 Promotes Translation in Human Cancer Cells. , 2016, Molecular cell.
[7] Yuanjiang Pan,et al. Kinetic and Thermodynamic Control of Protonation in Atmospheric Pressure Chemical Ionization , 2013, Journal of The American Society for Mass Spectrometry.
[8] Chuan He,et al. FTO-dependent demethylation of N6-methyladenosine regulates mRNA splicing and is required for adipogenesis , 2014, Cell Research.
[9] D. Meinel,et al. Prp19C and TREX: Interacting to promote transcription elongation and mRNA export , 2012, Transcription.
[10] Schraga Schwartz,et al. Transcriptome-Wide Mapping of 5-methylcytidine RNA Modifications in Bacteria, Archaea, and Yeast Reveals m5C within Archaeal mRNAs , 2013, PLoS genetics.
[11] Jernej Ule,et al. NSun2-Mediated Cytosine-5 Methylation of Vault Noncoding RNA Determines Its Processing into Regulatory Small RNAs , 2013, Cell reports.
[12] F. Stutz,et al. Keeping mRNPs in check during assembly and nuclear export , 2011, Nature Reviews Molecular Cell Biology.
[13] Chengqi Yi,et al. N6-Methyladenosine in Nuclear RNA is a Major Substrate of the Obesity-Associated FTO , 2011, Nature chemical biology.
[14] Saeed Tavazoie,et al. HNRNPA2B1 Is a Mediator of m6A-Dependent Nuclear RNA Processing Events , 2015, Cell.
[15] R. Reed,et al. Coupling transcription, splicing and mRNA export. , 2003, Current opinion in cell biology.
[16] Clifford A. Meyer,et al. Model-based Analysis of ChIP-Seq (MACS) , 2008, Genome Biology.
[17] J. Steitz,et al. Protein Ligands to Hur Modulate Its Interaction with Target Mrnas in Vivo , 2000, The Journal of cell biology.
[18] Bing Ren,et al. N6-methyladenosine-dependent regulation of messenger RNA stability , 2013 .
[19] Shiqing Ma,et al. Chemical pulldown reveals dynamic pseudouridylation of the mammalian transcriptome. , 2015, Nature chemical biology.
[20] Cole Trapnell,et al. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions , 2013, Genome Biology.
[21] Vihandha O. Wickramasinghe,et al. Control of mammalian gene expression by selective mRNA export , 2015, Nature Reviews Molecular Cell Biology.
[22] Aaron R. Quinlan,et al. Bioinformatics Applications Note Genome Analysis Bedtools: a Flexible Suite of Utilities for Comparing Genomic Features , 2022 .
[23] W. Gilbert,et al. Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells , 2014, Nature.
[24] A. Bird,et al. Purification, sequence, and cellular localization of a novel chromosomal protein that binds to Methylated DNA , 1992, Cell.
[25] V. Wickramasinghe,et al. mRNA Export from Mammalian Cell Nuclei Is Dependent on GANP , 2010, Current Biology.
[26] G. Crooks,et al. WebLogo: a sequence logo generator. , 2004, Genome research.
[27] Jun Li,et al. Transcriptome-Wide Mapping of RNA 5-Methylcytosine in Arabidopsis mRNAs and Noncoding RNAs , 2017, Plant Cell.
[28] R. Micura,et al. Distinct 5-methylcytosine profiles in poly(A) RNA from mouse embryonic stem cells and brain , 2017, Genome Biology.
[29] SH Song,et al. The BIG Data Center: from deposition to integration to translation , 2016, Nucleic Acids Res..
[30] M. Kupiec,et al. Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq , 2012, Nature.
[31] Qian Zhang,et al. GSA: Genome Sequence Archive* , 2017, Genom. Proteom. Bioinform..
[32] K. Redman,et al. RNA methyltransferases utilize two cysteine residues in the formation of 5-methylcytosine. , 2002, Biochemistry.
[33] S. Tavazoie,et al. N6-methyladenosine marks primary microRNAs for processing , 2015, Nature.
[34] Maxwell R. Mumbach,et al. Transcriptome-wide Mapping Reveals Widespread Dynamic-Regulated Pseudouridylation of ncRNA and mRNA , 2014, Cell.
[35] Olivier Elemento,et al. 5 0 UTR m 6 A Promotes Cap-Independent Translation Graphical , 2022 .
[36] J. Katahira. mRNA export and the TREX complex. , 2012, Biochimica et biophysica acta.
[37] Brad T. Sherman,et al. DAVID: Database for Annotation, Visualization, and Integrated Discovery , 2003, Genome Biology.
[38] Chuan He,et al. N6-methyladenosine-dependent RNA structural switches regulate RNA-protein interactions , 2015, Nature.
[39] Gideon Rechavi,et al. The dynamic N1-methyladenosine methylome in eukaryotic messenger RNA , 2016, Nature.
[40] Jérôme Hugues,et al. Model‐Based Analysis , 2013 .
[41] Shankar Balasubramanian,et al. Formation and Abundance of 5-Hydroxymethylcytosine in RNA , 2015, Chembiochem : a European journal of chemical biology.
[42] Mark Helm,et al. Post-transcriptional nucleotide modification and alternative folding of RNA , 2006, Nucleic acids research.
[43] Frank Lyko,et al. RNA cytosine methylation analysis by bisulfite sequencing , 2008, Nucleic acids research.
[44] T. Preiss,et al. Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA , 2012, Nucleic acids research.
[45] E. Hurt,et al. The protein Aly links pre-messenger-RNA splicing to nuclear export in metazoans , 2000, Nature.
[46] Ed Hurt,et al. Linking gene regulation to mRNA production and export. , 2011, Current opinion in cell biology.
[47] Felix Krueger,et al. Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications , 2011, Bioinform..
[48] Chengqi Yi,et al. Transcriptome-wide mapping reveals reversible and dynamic N(1)-methyladenosine methylome. , 2016, Nature chemical biology.
[49] R. Camerini-Otero,et al. The mouse X chromosome is enriched for sex-biased genes not subject to selection by meiotic sex chromosome inactivation , 2004, Nature Genetics.
[50] Paul Theodor Pyl,et al. HTSeq—a Python framework to work with high-throughput sequencing data , 2014, bioRxiv.
[51] S. Masuda,et al. RNA Export through the NPC in Eukaryotes , 2015, Genes.
[52] M. Frye,et al. Posttranscriptional methylation of transfer and ribosomal RNA in stress response pathways, cell differentiation, and cancer , 2016, Current opinion in oncology.
[53] Zhike Lu,et al. m6A-dependent regulation of messenger RNA stability , 2013, Nature.
[54] Ke Liu,et al. Structural basis for selective binding of m6A RNA by the YTHDC1 YTH domain. , 2014, Nature chemical biology.
[55] R. Roeder,et al. Accurate transcription initiation by RNA polymerase II in a soluble extract from isolated mammalian nuclei. , 1983, Nucleic acids research.
[56] Ed Hurt,et al. Exporting RNA from the nucleus to the cytoplasm , 2007, Nature Reviews Molecular Cell Biology.
[57] C. Langford,et al. Selective nuclear export of specific classes of mRNA from mammalian nuclei is promoted by GANP , 2014, Nucleic acids research.
[58] W. Hong,et al. A role for sorting nexin 27 in AMPA receptor trafficking , 2014, Nature Communications.
[59] F. Tuorto,et al. RNA cytosine methylation by Dnmt2 and NSun2 promotes tRNA stability and protein synthesis , 2012, Nature Structural &Molecular Biology.
[60] Björn Usadel,et al. Trimmomatic: a flexible trimmer for Illumina sequence data , 2014, Bioinform..
[61] P. Thibault,et al. Molecular dissection of the eukaryotic initiation factor 4E (eIF4E) export‐competent RNP , 2009, The EMBO journal.
[62] M. Schaefer,et al. RNA 5-Methylcytosine Analysis by Bisulfite Sequencing. , 2015, Methods in enzymology.
[63] Samir Adhikari,et al. Nuclear m(6)A Reader YTHDC1 Regulates mRNA Splicing. , 2016, Molecular cell.
[64] Chuan He,et al. N 6 -methyladenosine Modulates Messenger RNA Translation Efficiency , 2015, Cell.
[65] Zhike Lu,et al. Unique Features of the m6A Methylome in Arabidopsis thaliana , 2014, Nature Communications.
[66] Yun-Gui Yang,et al. Dynamic m6A modification and its emerging regulatory role in mRNA splicing , 2015 .
[67] Alexander F. Palazzo,et al. Sumoylation is Required for the Cytoplasmic Accumulation of a Subset of mRNAs , 2014, Genes.
[68] Bradley R. Cairns,et al. Identification of direct targets and modified bases of RNA cytosine methyltransferases , 2013, Nature Biotechnology.
[69] Izabela Makałowska,et al. Identification of human tRNA:m5C methyltransferase catalysing intron-dependent m5C formation in the first position of the anticodon of the pre-tRNA(CAA)Leu , 2006, Nucleic acids research.
[70] Thomas D. Schmittgen,et al. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. , 2001, Methods.
[71] Shu-Bing Qian,et al. Dynamic m6A mRNA methylation directs translational control of heat shock response , 2015, Nature.
[72] F. Waharte,et al. The human TREX-2 complex is stably associated with the nuclear pore basket , 2013, Journal of Cell Science.
[73] Chuan He,et al. Post-transcriptional gene regulation by mRNA modifications , 2016, Nature Reviews Molecular Cell Biology.
[74] Paul F Agris,et al. Bringing order to translation: the contributions of transfer RNA anticodon‐domain modifications , 2008, EMBO reports.