m6A RNA methylation regulates promoter- proximal pausing of RNA polymerase II

Ythdf is a N6‐methyladenosine reader that modulates Fmr1 target mRNA selection and restricts axonal growth in Drosophila

(2021) Lina Worpenberg et al.   EMBO JOURNAL

N6-methyladenosine of chromosome-associated regulatory RNA regulates chromatin state and transcription

(2020) Jun Liu et al.   SCIENCE

In situ dissection of domain boundaries affect genome topology and gene transcription in Drosophila

(2020) Rodrigo G. Arzate-Mejía et al.   Nature Communications

Promoter-proximal pausing mediated by the exon junction complex regulates splicing

(2019) Junaid Akhtar et al.   Nature Communications

Histone H3 trimethylation at lysine 36 guides m6A RNA modification co-transcriptionally

(2019) Huilin Huang et al.   NATURE

Stage-specific requirement for Mettl3-dependent m6A mRNA methylation during haematopoietic stem cell differentiation

(2019) Heather Lee et al.   NATURE CELL BIOLOGY

RNA polymerase II-independent recruitment of SPT6L at transcription start sites in Arabidopsis

(2019) Chen Chen et al.   NUCLEIC ACIDS RESEARCH

Global identification of functional microRNA-mRNA interactions in Drosophila

(2019) Hans-Hermann Wessels et al.   Nature Communications

m6A promotes R-loop formation to facilitate transcription termination

(2019) Xin Yang et al.   CELL RESEARCH

RNA-modifying enzymes and their function in a chromatin context

(2019) Konstantinos Tzelepis et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

N6-methyladenosine regulates the stability of RNA:DNA hybrids in human cells

(2019) Abdulkadir Abakir et al.   NATURE GENETICS

In vitro iCLIP-based modeling uncovers how the splicing factor U2AF2 relies on regulation by cofactors

(2018) F.X. Reymond Sutandy et al.   GENOME RESEARCH

Spt6 Association with RNA Polymerase II Directs mRNA Turnover During Transcription

(2018) Raghuvar Dronamraju et al.   MOLECULAR CELL

Transient N-6-Methyladenosine Transcriptome Sequencing Reveals a Regulatory Role of m6A in Splicing Efficiency

(2018) Annita Louloupi et al.   Cell Reports

Structural Insights into N 6 -methyladenosine (m 6 A) Modification in the Transcriptome

(2018) Jinbo Huang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Structure of activated transcription complex Pol II–DSIF–PAF–SPT6

(2018) Seychelle M. Vos et al.   NATURE

Spt6 Is Required for the Fidelity of Promoter Selection

(2018) Stephen M. Doris et al.   MOLECULAR CELL

Fat mass and obesity-associated (FTO) protein regulates adult neurogenesis

(2017) Liping Li et al.   HUMAN MOLECULAR GENETICS

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

m 6 A in mRNA: An Ancient Mechanism for Fine-Tuning Gene Expression

(2017) Jean-Yves Roignant et al.   TRENDS IN GENETICS

The m6A pathway facilitates sex determination in Drosophila

(2017) Lijuan Kan et al.   Nature Communications

CDK9-dependent RNA polymerase II pausing controls transcription initiation

(2017) Saskia Gressel et al.   eLife

Structural Basis for Cooperative Function of Mettl3 and Mettl14 Methyltransferases

(2016) Ping Wang et al.   MOLECULAR CELL

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

TT-seq maps the human transient transcriptome

(2016) Björn Schwalb et al.   SCIENCE

YTHDF2 destabilizes m6A-containing RNA through direct recruitment of the CCR4–NOT deadenylase complex

(2016) Hao Du et al.   Nature Communications

The Biogenesis of Nascent Circular RNAs

(2016) Yang Zhang et al.   Cell Reports

5′ UTR m6A Promotes Cap-Independent Translation

(2015) Kate D. Meyer et al.   CELL

PAF1, a Molecular Regulator of Promoter-Proximal Pausing by RNA Polymerase II

(2015) Fei Xavier Chen et al.   CELL

RNAN6-methyladenosine methylation in post-transcriptional gene expression regulation

(2015) Yanan Yue et al.   GENES & DEVELOPMENT

Characterization of Human Cyclin-Dependent Kinase 12 (CDK12) and CDK13 Complexes in C-Terminal Domain Phosphorylation, Gene Transcription, and RNA Processing

(2015) Kaiwei Liang et al.   MOLECULAR AND CELLULAR BIOLOGY

THZ1 Reveals Roles for Cdk7 in Co-transcriptional Capping and Pausing

(2015) Kyle A. Nilson et al.   MOLECULAR CELL

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

CDK9 inhibitors define elongation checkpoints at both ends of RNA polymerase II–transcribed genes

(2015) Clélia Laitem et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

RNA polymerase II-associated factor 1 regulates the release and phosphorylation of paused RNA polymerase II

(2015) M. Yu et al.   SCIENCE

m6A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation

(2015) Shay Geula et al.   SCIENCE

CDK9 inhibitors define elongation checkpoints at both ends of RNA polymerase II–transcribed genes

(2015) Clélia Laitem et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

GAGA Factor Maintains Nucleosome-Free Regions and Has a Role in RNA Polymerase II Recruitment to Promoters

(2015) Nicholas J. Fuda et al.   PLoS Genetics

Mammalian WTAP is a regulatory subunit of the RNA N6-methyladenosine methyltransferase

(2014) Xiao-Li Ping et al.   CELL RESEARCH

Quantitative ChIP-Seq Normalization Reveals Global Modulation of the Epigenome

(2014) David A. Orlando et al.   Cell Reports

Distinct mechanisms of transcriptional pausing orchestrated by GAGA factor and M1BP, a novel transcription factor

(2013) Jian Li et al.   EMBO JOURNAL

Histone chaperone FACT action during transcription through chromatin by RNA polymerase II

(2013) F.-K. Hsieh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq

(2013) C. D. Arnold et al.   SCIENCE

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

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

(2012) Dan Dominissini et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans

(2012) Karen Adelman et al.   NATURE REVIEWS GENETICS

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY