Thioguanosine Conversion Enables mRNA‐Lifetime Evaluation by RNA Sequencing Using Double Metabolic Labeling (TUC‐seq DUAL)
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Dietmar Rieder | Eric Ennifar | Alexandra Lusser | R. Micura | K. Brillet | A. Lusser | Lukas Trixl | Ronald Micura | Catherina Gasser | Isabel Delazer | Eva Neuner | Katharina Pascher | Karl Brillet | Sarah Klotz | Lukas Trixl | Maximilian Himmelstoß | E. Ennifar | Catherina Gasser | Eva Neuner | Maximilian Himmelstoß | Katharina Pascher | D. Rieder | Isabel Delazer | Sarah Klotz
[1] A. Rentmeister,et al. Chemo‐enzymatic treatment of RNA to facilitate analyses , 2019, Wiley interdisciplinary reviews. RNA.
[2] Yuri Motorin,et al. Methods for RNA Modification Mapping Using Deep Sequencing: Established and New Emerging Technologies , 2019, Genes.
[3] Lars Dölken,et al. RNA dynamics revealed by metabolic RNA labeling and biochemical nucleoside conversions , 2018, Nature Methods.
[4] B. Tian,et al. Global analysis reveals multiple pathways for unique regulation of mRNA decay in induced pluripotent stem cells , 2012, Genome research.
[5] Hana Cahová,et al. Capture and sequencing of NAD-capped RNA sequences with NAD captureSeq , 2016, Nature Protocols.
[6] Catherine Tran,et al. Progress and challenges for chemical probing of RNA structure inside living cells. , 2015, Nature chemical biology.
[7] Tsuyoshi Murata,et al. {m , 1934, ACML.
[8] E. Paleček,et al. Osmium tetroxide reactivity of DNA bases in nucleotide sequencing and probing of DNA structure. , 1991, General physiology and biophysics.
[9] Chuan He,et al. Where, When, and How: Context-Dependent Functions of RNA Methylation Writers, Readers, and Erasers. , 2019, Molecular cell.
[10] Johannes Zuber,et al. Thiol-linked alkylation of RNA to assess expression dynamics , 2017, Nature Methods.
[11] F. Carvalho,et al. Methods for the analysis of transcriptome dynamics. , 2019, Toxicology research.
[12] R. Micura,et al. Osmium-mediated 4sU-to-C transformation as key to study RNA dynamics by sequencing (TUC-seq) , 2017 .
[13] S. Balasubramanian,et al. Detecting RNA G-Quadruplexes (rG4s) in the Transcriptome. , 2018, Cold Spring Harbor perspectives in biology.
[14] H. Pitot,et al. Inhibition of ribosomal RNA maturation in Novikoff hepatoma cells by toyocamycin, tubercidin, and 6-thioguanosine. , 1974, Cancer research.
[15] Alexei A. Sharov,et al. Database for mRNA Half-Life of 19 977 Genes Obtained by DNA Microarray Analysis of Pluripotent and Differentiating Mouse Embryonic Stem Cells , 2008, DNA research : an international journal for rapid publication of reports on genes and genomes.
[16] Günter Mayer,et al. Systematic evaluation of error rates and causes in short samples in next-generation sequencing , 2018, Scientific Reports.
[17] M. Helm,et al. Diastereoselectivity of 5-Methyluridine Osmylation Is Inverted inside an RNA Chain. , 2016, Bioconjugate chemistry.
[18] Jayodita C. Sanghvi,et al. Crystal structure, stability and in vitro RNAi activity of oligoribonucleotides containing the ribo-difluorotoluyl nucleotide: insights into substrate requirements by the human RISC Ago2 enzyme , 2007, Nucleic acids research.
[19] Fabian J Theis,et al. scSLAM-seq reveals core features of transcription dynamics in single cells , 2019, Nature.
[20] N. Luedtke,et al. Three-Component Bioorthogonal Reactions on Cellular DNA and RNA. , 2019, Bioconjugate chemistry.
[21] Jennifer A. Doudna,et al. A specific monovalent metal ion integral to the AA platform of the RNA tetraloop receptor , 1998, Nature Structural Biology.
[22] R. Sandberg,et al. NASC-seq monitors RNA synthesis in single cells , 2018, Nature Communications.
[23] W. Melvin,et al. Incorporation of 6-thioguanosine and 4-thiouridine into RNA. Application to isolation of newly synthesised RNA by affinity chromatography. , 1978, European journal of biochemistry.
[24] Scott B. Dewell,et al. Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP , 2010, Cell.
[25] R. Micura,et al. Thiouridine-to-Cytidine Conversion Sequencing (TUC-Seq) to Measure mRNA Transcription and Degradation Rates. , 2020, Methods in molecular biology.
[26] J. Wilusz,et al. Metabolic labeling and recovery of nascent RNA to accurately quantify mRNA stability. , 2017, Methods.
[27] Dongrong Chen,et al. Osmium tetroxide as a probe of RNA structure. , 2017, RNA.
[28] H. Nielsen,et al. Sequencing-based methods for detection and quantitation of ribose methylations in RNA. , 2019, Methods.
[29] Dietmar Rieder,et al. Osmium-Mediated Transformation of 4-Thiouridine to Cytidine as Key To Study RNA Dynamics by Sequencing. , 2017, Angewandte Chemie.
[30] M. Dabeva,et al. Re-utilization of pyrimidine nucleotides during rat liver regeneration. , 1985, The Biochemical journal.
[31] Mohsen Khorshid,et al. PAR-CliP - A Method to Identify Transcriptome-wide the Binding Sites of RNA Binding Proteins , 2010, Journal of visualized experiments : JoVE.
[32] R. Zimmer,et al. High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay. , 2008, RNA.
[33] Veronika A. Herzog,et al. Sequencing cell-type-specific transcriptomes with SLAM-ITseq , 2019, Nature Protocols.
[34] Jeremy A. Schofield,et al. Expanding the Nucleoside Recoding Toolkit: Revealing RNA Population Dynamics with 6-Thioguanosine. , 2018, Journal of the American Chemical Society.
[35] J. Hadfield,et al. RNA sequencing: the teenage years , 2019, Nature Reviews Genetics.
[36] C. Burrows,et al. Structural elucidation of bisulfite adducts to pseudouridine that result in deletion signatures during reverse transcription of RNA. , 2019, Journal of the American Chemical Society.
[37] A. Okamoto,et al. Osmium Tag for Post‐transcriptionally Modified RNA , 2018, Chembiochem : a European journal of chemical biology.
[38] R. Kierzek,et al. Thermodynamic and structural contributions of the 6-thioguanosine residue to helical properties of RNA , 2019, Scientific Reports.
[39] Philipp Reautschnig,et al. The notorious R.N.A. in the spotlight - drug or target for the treatment of disease , 2016, RNA biology.
[40] Meaghan C. Sullivan,et al. TimeLapse-seq: Adding a temporal dimension to RNA sequencing through nucleoside recoding , 2018, Nature Methods.
[41] Ralph E. Kleiner,et al. A Metabolic Engineering Approach to Incorporate Modified Pyrimidine Nucleosides into Cellular RNA. , 2019, Journal of the American Chemical Society.
[42] M. Selbach,et al. Global quantification of mammalian gene expression control , 2011, Nature.
[43] Chengqi Yi,et al. Epitranscriptome sequencing technologies: decoding RNA modifications , 2016, Nature Methods.
[44] Jesse J. Lipp,et al. SLAM-seq defines direct gene-regulatory functions of the BRD4-MYC axis , 2018, Science.
[45] R. Schlegel,et al. Selective isolation of newly synthesized mammalian mRNA after in vivo labeling with 4-thiouridine or 6-thioguanosine. , 1988, Analytical biochemistry.