标题
Limits in the detection of m6A changes using MeRIP/m6A-seq
作者
关键词
-
出版物
Scientific Reports
Volume 10, Issue 1, Pages -
出版商
Springer Science and Business Media LLC
发表日期
2020-04-20
DOI
10.1038/s41598-020-63355-3
参考文献
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads
- (2019) Yang Liao et al. NUCLEIC ACIDS RESEARCH
- Histone H3 trimethylation at lysine 36 guides m6A RNA modification co-transcriptionally
- (2019) Huilin Huang et al. NATURE
- The RNA N6-methyladenosine modification landscape of human fetal tissues
- (2019) Shan Xiao et al. NATURE CELL BIOLOGY
- Deciphering the “m6A Code” via Antibody-Independent Quantitative Profiling
- (2019) Miguel Angel Garcia-Campos et al. CELL
- Accurate detection of m6A RNA modifications in native RNA sequences
- (2019) Huanle Liu et al. Nature Communications
- Altered m6A Modification of Specific Cellular Transcripts Affects Flaviviridae Infection
- (2019) Nandan S. Gokhale et al. MOLECULAR CELL
- R-2HG Exhibits Anti-tumor Activity by Targeting FTO/m 6 A/MYC/CEBPA Signaling
- (2018) Rui Su et al. CELL
- FTO, m6 Am , and the hypothesis of reversible epitranscriptomic mRNA modifications
- (2018) Jan Mauer et al. FEBS LETTERS
- MeTDiff: A Novel Differential RNA Methylation Analysis for MeRIP-Seq Data
- (2018) Xiaodong Cui et al. IEEE-ACM Transactions on Computational Biology and Bioinformatics
- N 6 -Methyladenosine Guides mRNA Alternative Translation during Integrated Stress Response
- (2018) Jun Zhou et al. MOLECULAR CELL
- Zc3h13 Regulates Nuclear RNA m 6 A Methylation and Mouse Embryonic Stem Cell Self-Renewal
- (2018) Jing Wen et al. MOLECULAR CELL
- Recognition of RNA N6-methyladenosine by IGF2BP proteins enhances mRNA stability and translation
- (2018) Huilin Huang et al. NATURE CELL BIOLOGY
- Highly parallel direct RNA sequencing on an array of nanopores
- (2018) Daniel R Garalde et al. NATURE METHODS
- A potentially abundant junctional RNA motif stabilized by m6A and Mg2+
- (2018) Bei Liu et al. Nature Communications
- N6-methyladenosine modification and the YTHDF2 reader protein play cell type specific roles in lytic viral gene expression during Kaposi's sarcoma-associated herpesvirus infection
- (2018) Charles R. Hesser et al. PLoS Pathogens
- Differential m6A, m6Am, and m1A Demethylation Mediated by FTO in the Cell Nucleus and Cytoplasm
- (2018) Jiangbo Wei et al. MOLECULAR CELL
- The SMAD2/3 interactome reveals that TGFβ controls m6A mRNA methylation in pluripotency
- (2018) Alessandro Bertero et al. NATURE
- m6A mRNA methylation regulates AKT activity to promote the proliferation and tumorigenicity of endometrial cancer
- (2018) Jun Liu et al. NATURE CELL BIOLOGY
- The Role of m6A/m-RNA Methylation in Stress Response Regulation
- (2018) Mareen Engel et al. NEURON
- N6-methyladenosine modification of hepatitis B virus RNA differentially regulates the viral life cycle
- (2018) Hasan Imam et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Refined RIP-seq protocol for epitranscriptome analysis with low input materials
- (2018) Yong Zeng et al. PLOS BIOLOGY
- The m6A Writer: Rise of a Machine for Growing Tasks
- (2018) Dario L. Balacco et al. BIOCHEMISTRY
- RNA m6 A modification enzymes shape innate responses to DNA by regulating interferon β
- (2018) Rosa M. Rubio et al. GENES & DEVELOPMENT
- m6A modification controls the innate immune response to infection by targeting type I interferons
- (2018) Roni Winkler et al. NATURE IMMUNOLOGY
- Circadian Clock Regulation of Hepatic Lipid Metabolism by Modulation of m6A mRNA Methylation
- (2018) Xiang Zhong et al. Cell Reports
- Promoter-bound METTL3 maintains myeloid leukaemia by m6A-dependent translation control
- (2017) Isaia Barbieri et al. NATURE
- The N6-methyladenosine (m6A)-forming enzyme METTL3 controls myeloid differentiation of normal hematopoietic and leukemia cells
- (2017) Ly P Vu et al. NATURE MEDICINE
- mRNA N6-methyladenosine methylation of postnatal liver development in pig
- (2017) Shen He et al. PLoS One
- Pre-mRNA processing includes N 6 methylation of adenosine residues that are retained in mRNA exons and the fallacy of “RNA epigenetics”
- (2017) Robert B. Darnell et al. RNA
- Our views of dynamic N 6 -methyladenosine RNA methylation
- (2017) Boxuan Simen Zhao et al. RNA
- m6aViewer: software for the detection, analysis, and visualization of N 6 -methyladenosine peaks from m 6 A-seq/ME-RIP sequencing data
- (2017) Agne Antanaviciute et al. RNA
- m 6 A RNA Methylation Regulates the Self-Renewal and Tumorigenesis of Glioblastoma Stem Cells
- (2017) Qi Cui et al. Cell Reports
- Viral and cellular N6-methyladenosine and N6,2′-O-dimethyladenosine epitranscriptomes in the KSHV life cycle
- (2017) Brandon Tan et al. Nature Microbiology
- A novel algorithm for calling mRNA m6A peaks by modeling biological variances in MeRIP-seq data
- (2016) Xiaodong Cui et al. BIOINFORMATICS
- Complex heatmaps reveal patterns and correlations in multidimensional genomic data
- (2016) Zuguang Gu et al. BIOINFORMATICS
- Dynamics of Human and Viral RNA Methylation during Zika Virus Infection
- (2016) Gianluigi Lichinchi et al. Cell Host & Microbe
- N6 -Methyladenosine in Flaviviridae Viral RNA Genomes Regulates Infection
- (2016) Nandan S. Gokhale et al. Cell Host & Microbe
- The m 6 A Methyltransferase METTL3 Promotes Translation in Human Cancer Cells
- (2016) Shuibin Lin et al. MOLECULAR CELL
- Reversible methylation of m6Am in the 5′ cap controls mRNA stability
- (2016) Jan Mauer et al. NATURE
- Near-optimal probabilistic RNA-seq quantification
- (2016) Nicolas L Bray et al. NATURE BIOTECHNOLOGY
- m6A-LAIC-seq reveals the census and complexity of the m6A epitranscriptome
- (2016) Benoit Molinie et al. NATURE METHODS
- g:Profiler—a web server for functional interpretation of gene lists (2016 update)
- (2016) Jüri Reimand et al. NUCLEIC ACIDS RESEARCH
- How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?
- (2016) Nicholas J. Schurch et al. RNA
- N6-methyladenosine of HIV-1 RNA regulates viral infection and HIV-1 Gag protein expression
- (2016) Nagaraja Tirumuru et al. eLife
- 5′ UTR m6A Promotes Cap-Independent Translation
- (2015) Kate D. Meyer et al. CELL
- N6-methyladenosine Modulates Messenger RNA Translation Efficiency
- (2015) Xiao Wang et al. CELL
- m6A RNA Methylation Is Regulated by MicroRNAs and Promotes Reprogramming to Pluripotency
- (2015) Tong Chen et al. Cell Stem Cell
- Coordination of m 6 A mRNA Methylation and Gene Transcription by ZFP217 Regulates Pluripotency and Reprogramming
- (2015) Francesca Aguilo et al. Cell Stem Cell
- A majority of m6A residues are in the last exons, allowing the potential for 3′ UTR regulation
- (2015) Shengdong Ke et al. GENES & DEVELOPMENT
- Dynamic m6A mRNA methylation directs translational control of heat shock response
- (2015) Jun Zhou et al. NATURE
- Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome
- (2015) Bastian Linder et al. NATURE METHODS
- m6A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation
- (2015) Shay Geula et al. SCIENCE
- Trimmomatic: a flexible trimmer for Illumina sequence data
- (2014) Anthony M. Bolger et al. BIOINFORMATICS
- FTO-dependent demethylation of N6-methyladenosine regulates mRNA splicing and is required for adipogenesis
- (2014) Xu Zhao et al. CELL RESEARCH
- m6A RNA Modification Controls Cell Fate Transition in Mammalian Embryonic Stem Cells
- (2014) Pedro J. Batista et al. Cell Stem Cell
- Musashi-2 controls cell fate, lineage bias, and TGF-β signaling in HSCs
- (2014) Sun-Mi Park et al. JOURNAL OF EXPERIMENTAL MEDICINE
- A protocol for RNA methylation differential analysis with MeRIP-Seq data and exomePeak R/Bioconductor package
- (2014) Jia Meng et al. METHODS
- A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium
- (2014) NATURE BIOTECHNOLOGY
- N6-methyladenosine modification destabilizes developmental regulators in embryonic stem cells
- (2014) Yang Wang et al. NATURE CELL BIOLOGY
- Perturbation of m6A Writers Reveals Two Distinct Classes of mRNA Methylation at Internal and 5′ Sites
- (2014) Schraga Schwartz et al. Cell Reports
- RNA-Methylation-Dependent RNA Processing Controls the Speed of the Circadian Clock
- (2013) Jean-Michel Fustin et al. CELL
- The fat mass and obesity associated gene (Fto) regulates activity of the dopaminergic midbrain circuitry
- (2013) Martin E Hess et al. NATURE NEUROSCIENCE
- Probing N6-methyladenosine RNA modification status at single nucleotide resolution in mRNA and long noncoding RNA
- (2013) N. Liu et al. RNA
- STAR: ultrafast universal RNA-seq aligner
- (2012) Alexander Dobin et al. BIOINFORMATICS
- Comprehensive Analysis of mRNA Methylation Reveals Enrichment in 3′ UTRs and near Stop Codons
- (2012) Kate D. Meyer et al. CELL
- ALKBH5 Is a Mammalian RNA Demethylase that Impacts RNA Metabolism and Mouse Fertility
- (2012) Guanqun Zheng et al. MOLECULAR CELL
- Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq
- (2012) Dan Dominissini et al. NATURE
- The birth of the Epitranscriptome: deciphering the function of RNA modifications
- (2012) Yogesh Saletore et al. GENOME BIOLOGY
- N6-Methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO
- (2011) Guifang Jia et al. Nature Chemical Biology
- BEDTools: a flexible suite of utilities for comparing genomic features
- (2010) Aaron R. Quinlan et al. BIOINFORMATICS
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
- (2009) M. D. Robinson et al. BIOINFORMATICS
- RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays
- (2008) J. C. Marioni et al. GENOME RESEARCH
- Model-based Analysis of ChIP-Seq (MACS)
- (2008) Yong Zhang et al. GENOME BIOLOGY
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