4.8 Article

Repurposing RNA sequencing for discovery of RNA modifications in clinical cohorts

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Multidisciplinary Sciences

Next-generation characterization of the Cancer Cell Line Encyclopedia

Mahmoud Ghandi et al.

NATURE (2019)

Article Biochemistry & Molecular Biology

The human 18S rRNA m6A methyltransferase METTL5 is stabilized by TRMT112

Nhan Van Tran et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Neurosciences

Widespread RNA editing dysregulation in brains from autistic individuals

Stephen S. Tran et al.

NATURE NEUROSCIENCE (2019)

Article Biochemistry & Molecular Biology

MODOMICS: a database of RNA modification pathways. 2017 update

Pietro Boccaletto et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Oncology

The Integrated Genomic Landscape of Thymic Epithelial Tumors

Milan Radovich et al.

CANCER CELL (2018)

Article Biochemistry & Molecular Biology

A Pan-Cancer Analysis of Enhancer Expression in Nearly 9000 Patient Samples

Han Chen et al.

Article Biochemistry & Molecular Biology

Oncogenic Signaling Pathways in The Cancer Genome Atlas

Francisco Sanchez-Vega et al.

Article Biochemistry & Molecular Biology

Perspectives on topology of the human m(1)A methylome at single nucleotide resolution

Xushen Xiong et al.

Review Biochemistry & Molecular Biology

Epitranscriptomic Code and Its Alterations in Human Disease

Rajashekar Varma Kadumuri et al.

TRENDS IN MOLECULAR MEDICINE (2018)

Article Oncology

Integrative Molecular Characterization of Malignant Pleural Mesothelioma

Jutija Hmeljaki et al.

CANCER DISCOVERY (2018)

Review Biotechnology & Applied Microbiology

The Emerging Field of Epitranscriptomics in Neurodevelopmental and Neuronal Disorders

Margarita T. Angelova et al.

FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY (2018)

Article Biochemistry & Molecular Biology

REDIportal: a comprehensive database of A-to-I RNA editing events in humans

Ernesto Picardi et al.

NUCLEIC ACIDS RESEARCH (2017)

Article Biochemistry & Molecular Biology

Systematic characterization of A-to-I RNA editing hotspots in microRNAs across human cancers

Yumeng Wang et al.

GENOME RESEARCH (2017)

Article Biochemistry & Molecular Biology

Three distinct 3-methylcytidine (m3C) methyltransferases modify tRNA and mRNA in mice and humans

Luang Xu et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2017)

Article Chemistry, Multidisciplinary

Fingerprints of Modified RNA Bases from Deep Sequencing Profiles

Anna M. Kietrys et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2017)

Editorial Material Biochemistry & Molecular Biology

Loud and Clear Epitranscriptomic m1A Signals: Now in Single-Base Resolution

Dan Dominissini et al.

MOLECULAR CELL (2017)

Editorial Material Multidisciplinary Sciences

Shrinking maps of RNA modifications

Anya V. Grozhik et al.

NATURE (2017)

Article Multidisciplinary Sciences

Integrated genomic characterization of oesophageal carcinoma

Jihun Kim et al.

NATURE (2017)

Article Multidisciplinary Sciences

Integrated genomic and molecular characterization of cervical cancer

Robert D. Burk et al.

NATURE (2017)

Article Multidisciplinary Sciences

Dynamic landscape and regulation of RNA editing in mammals

Meng How Tan et al.

NATURE (2017)

Article Multidisciplinary Sciences

The m1A landscape on cytosolic and mitochondrial mRNA at single-base resolution

Modi Safra et al.

NATURE (2017)

Article Biochemical Research Methods

Nm-seq maps 2′-O-methytation sites in human mRNA with base precision

Qing Dai et al.

NATURE METHODS (2017)

Review Genetics & Heredity

Detecting RNA modifications in the epitranscriptome: predict and validate

Mark Helm et al.

NATURE REVIEWS GENETICS (2017)

Review Biochemistry & Molecular Biology

The RNA modification landscape in human disease

Nicky Jonkhout et al.

Article Biochemistry & Molecular Biology

Comprehensive and Integrated Genomic Characterization of Adult Soft Tissue Sarcomas

Alexander J. Lazar et al.

Article Biochemistry & Molecular Biology

Comprehensive Molecular Characterization of Muscle-Invasive Bladder Cancer

A. Gordon Robertson et al.

Article Oncology

Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma

Andrew J. Aguirre et al.

CANCER CELL (2017)

Review Biochemistry & Molecular Biology

Dynamic RNA Modifications in Gene Expression Regulation

Ian A. Roundtree et al.

Article Biochemistry & Molecular Biology

Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma

Adrian Ally et al.

Article Oncology

Integrated Molecular Characterization of Uterine Carcinosarcoma

Andrew D. Cherniack et al.

CANCER CELL (2017)

Article Biochemistry & Molecular Biology

GtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes

Patricia P. Chan et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Gastroenterology & Hepatology

ADAR-Mediated RNA Editing Predicts Progression and Prognosis of Gastric Cancer

Tim Hon Man Chan et al.

GASTROENTEROLOGY (2016)

Article Biochemistry & Molecular Biology

RNA-DNA sequence differences in Saccharomyces cerevisiae

Isabel X. Wang et al.

GENOME RESEARCH (2016)

Article Multidisciplinary Sciences

The dynamic N1-methyladenosine methylome in eukaryotic messenger RNA

Dan Dominissini et al.

NATURE (2016)

Article Biochemistry & Molecular Biology

Transcriptome-wide mapping reveals reversible and dynamic N1-methyladenosine methylome

Xiaoyu Li et al.

NATURE CHEMICAL BIOLOGY (2016)

Article Medicine, General & Internal

Comprehensive Molecular Characterization of Papillary Renal-Cell Carcinoma

W. Marston Linehan et al.

NEW ENGLAND JOURNAL OF MEDICINE (2016)

Article Biochemistry & Molecular Biology

The Molecular Taxonomy of Primary Prostate Cancer

Adam Abeshouse et al.

Article Biochemistry & Molecular Biology

Comprehensive Molecular Portraits of Invasive Lobular Breast Cancer

Giovanni Ciriello et al.

Article Biochemistry & Molecular Biology

Genomic Classification of Cutaneous Melanoma

Rehan Akbani et al.

Article Multidisciplinary Sciences

Comprehensive genomic characterization of head and neck squamous cell carcinomas

Michael S. Lawrence et al.

NATURE (2015)

Article Biochemistry & Molecular Biology

Chemical pulldown reveals dynamic pseudouridylation of the mammalian transcriptome

Xiaoyu Li et al.

NATURE CHEMICAL BIOLOGY (2015)

Article Biochemical Research Methods

Genome sequence-independent identification of RNA editing sites

Qing Zhang et al.

NATURE METHODS (2015)

Article Biochemical Research Methods

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

Bastian Linder et al.

NATURE METHODS (2015)

Article Medicine, General & Internal

Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas

Daniel J. Brat et al.

NEW ENGLAND JOURNAL OF MEDICINE (2015)

Article Chemistry, Multidisciplinary

High-Resolution N6-Methyladenosine (m6A) Map Using Photo-Crosslinking-Assisted m6A Sequencing

Kai Chen et al.

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION (2015)

Article Oncology

The Somatic Genomic Landscape of Chromophobe Renal Cell Carcinoma

Caleb F. Davis et al.

CANCER CELL (2014)

Article Biochemistry & Molecular Biology

Integrated Genomic Characterization of Papillary Thyroid Carcinoma

Nishant Agrawal et al.

Article Biochemistry & Molecular Biology

A-to-I RNA editing occurs at over a hundred million genomic sites, located in a majority of human genes

Lily Bazak et al.

GENOME RESEARCH (2014)

Article Multidisciplinary Sciences

Comprehensive molecular characterization of gastric adenocarcinoma

Adam J. Bass et al.

NATURE (2014)

Article Multidisciplinary Sciences

Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells

Thomas M. Carlile et al.

NATURE (2014)

Article Multidisciplinary Sciences

Comprehensive molecular profiling of lung adenocarcinoma

Eric A. Collisson et al.

NATURE (2014)

Article Multidisciplinary Sciences

Comprehensive molecular characterization of urothelial bladder carcinoma

John N. Weinstein et al.

NATURE (2014)

Article Biochemistry & Molecular Biology

A METTL3-METTL14 complex mediates mammalian nuclear RNA N6-adenosine methylation

Jianzhao Liu et al.

NATURE CHEMICAL BIOLOGY (2014)

Article Biochemistry & Molecular Biology

RADAR: a rigorously annotated database of A-to-I RNA editing

Gokul Ramaswami et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Genetics & Heredity

Reliable Identification of Genomic Variants from RNA-Seq Data

Robert Piskol et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2013)

Article Biochemical Research Methods

Comparing somatic mutation-callers: beyond Venn diagrams

Su Yeon Kim et al.

BMC BIOINFORMATICS (2013)

Article Biochemistry & Molecular Biology

The Somatic Genomic Landscape of Glioblastoma

Cameron W. Brennan et al.

Article Multidisciplinary Sciences

Comprehensivemolecular characterization of clear cell renal cell carcinoma

Chad J. Creighton et al.

NATURE (2013)

Article Multidisciplinary Sciences

Integrated genomic characterization of endometrial carcinoma

Gad Getz et al.

NATURE (2013)

Letter Biotechnology & Applied Microbiology

Lack of evidence for existence of noncanonical RNA editing

Robert Piskol et al.

NATURE BIOTECHNOLOGY (2013)

Article Biotechnology & Applied Microbiology

Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples

Kristian Cibulskis et al.

NATURE BIOTECHNOLOGY (2013)

Editorial Material Genetics & Heredity

The Cancer Genome Atlas Pan-Cancer analysis project

John N. Weinstein et al.

NATURE GENETICS (2013)

Article Biochemistry & Molecular Biology

Recoding RNA editing of AZIN1 predisposes to hepatocellular carcinoma

Lei Lei Chen et al.

NATURE MEDICINE (2013)

Article Biochemical Research Methods

Identifying RNA editing sites using RNA sequencing data alone

Gokul Ramaswami et al.

NATURE METHODS (2013)

Article Medicine, General & Internal

Genomic and Epigenomic Landscapes of Adult De Novo Acute Myeloid Leukemia

Timothy J. Ley et al.

NEW ENGLAND JOURNAL OF MEDICINE (2013)

Article Biochemistry & Molecular Biology

HAMR: high-throughput annotation of modified ribonucleotides

Paul Ryvkin et al.

Article Biochemistry & Molecular Biology

Accurate identification of A-to-I RNA editing in human by transcriptome sequencing

Jae Hoon Bahn et al.

GENOME RESEARCH (2012)

Article Multidisciplinary Sciences

Comprehensive molecular characterization of human colon and rectal cancer

Donna M. Muzny et al.

NATURE (2012)

Article Multidisciplinary Sciences

Comprehensive molecular portraits of human breast tumours

Daniel C. Koboldt et al.

NATURE (2012)

Article Multidisciplinary Sciences

Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq

Dan Dominissini et al.

NATURE (2012)

Article Multidisciplinary Sciences

Comprehensive genomic characterization of squamous cell lung cancers

Peter S. Hammerman et al.

NATURE (2012)

Article Biotechnology & Applied Microbiology

Comprehensive analysis of RNA-Seq data reveals extensive RNA editing in a human transcriptome

Zhiyu Peng et al.

NATURE BIOTECHNOLOGY (2012)

Article Biochemical Research Methods

Accurate identification of human Alu and non-Alu RNA editing sites

Gokul Ramaswami et al.

NATURE METHODS (2012)

Article Biochemistry & Molecular Biology

Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA

Jeffrey E. Squires et al.

NUCLEIC ACIDS RESEARCH (2012)

Editorial Material Multidisciplinary Sciences

Comment on Widespread RNA and DNA Sequence Differences in the Human Transcriptome

Joseph K. Pickrell et al.

SCIENCE (2012)

Editorial Material Multidisciplinary Sciences

Comment on Widespread RNA and DNA Sequence Differences in the Human Transcriptome

Wei Lin et al.

SCIENCE (2012)

Editorial Material Multidisciplinary Sciences

Comment on Widespread RNA and DNA Sequence Differences in the Human Transcriptome

Claudia L. Kleinman et al.

SCIENCE (2012)

Article Multidisciplinary Sciences

Integrated genomic analyses of ovarian carcinoma

D. Bell et al.

NATURE (2011)

Article Multidisciplinary Sciences

Very Few RNA and DNA Sequence Differences in the Human Transcriptome

Daniel R. Schrider et al.

PLOS ONE (2011)

Article Multidisciplinary Sciences

Widespread RNA and DNA Sequence Differences in the Human Transcriptome

Mingyao Li et al.

SCIENCE (2011)

Review Cell Biology

tRNA biology charges to the front

Eric M. Phizicky et al.

GENES & DEVELOPMENT (2010)

Article Biochemistry & Molecular Biology

3′ End Processing of a Long Nuclear-Retained Noncoding RNA Yields a tRNA-like Cytoplasmic RNA

Jeremy E. Wilusz et al.

Article Biochemistry & Molecular Biology

The 3D rRNA modification maps database: with interactive tools for ribosome analysis

Dorota Piekna-Przybylska et al.

NUCLEIC ACIDS RESEARCH (2008)