Mammalian NET-seq analysis defines nascent RNA profiles and associated RNA processing genome-wide

scientific article published on 4 February 2016

Mammalian NET-seq analysis defines nascent RNA profiles and associated RNA processing genome-wide is …
instance of (P31):
scholarly articleQ13442814

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P6179Dimensions Publication ID1024800517
P356DOI10.1038/NPROT.2016.012
P2888exact matchhttps://scigraph.springernature.com/pub.10.1038/nprot.2016.012
P932PMC publication ID5152764
P698PubMed publication ID26844429
P5875ResearchGate publication ID292989914

P50authorNicholas Jarvis ProudfootQ21166845
Tomás GomesQ55163373
P2093author name stringTakayuki Nojima
Maria Carmo-Fonseca
P2860cites workNascent transcript sequencing visualizes transcription at nucleotide resolutionQ27930489
Exon tethering in transcription by RNA polymerase IIQ28302498
Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promotersQ28302903
Regulating RNA polymerase pausing and transcription elongation in embryonic stem cellsQ29392187
Pre-mRNA processing reaches back to transcription and ahead to translationQ29615045
RNA sequencing: advances, challenges and opportunitiesQ29619605
A pause sequence enriched at translation start sites drives transcription dynamics in vivoQ33939698
Efficient and comprehensive representation of uniqueness for next-generation sequencing by minimum unique length analysesQ34562363
Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancersQ34626036
RNA-Seq-quantitative measurement of expression through massively parallel RNA-sequencingQ34658292
Primary microRNA transcripts are processed co-transcriptionally.Q34931030
Native elongating transcript sequencing reveals human transcriptional activity at nucleotide resolutionQ35927818
Molecular dissection of mammalian RNA polymerase II transcriptional terminationQ36528493
Physical Isolation of Nascent RNA Chains Transcribed by RNA Polymerase II: Evidence for Cotranscriptional SplicingQ36669203
Primary microRNA transcript retention at sites of transcription leads to enhanced microRNA productionQ36749637
Definition of RNA polymerase II CoTC terminator elements in the human genome.Q36817549
Extensive polymerase pausing during Drosophila axis patterning enables high-level and pliable transcriptionQ36902919
Condensin controls recruitment of RNA polymerase II to achieve nematode X-chromosome dosage compensation.Q36942407
Dynamic phosphorylation patterns of RNA polymerase II CTD during transcriptionQ38043848
Precise maps of RNA polymerase reveal how promoters direct initiation and pausingQ38606913
Nucleosomes are context-specific, H2A.Z-modulated barriers to RNA polymeraseQ39017547
Transcription regulation through promoter-proximal pausing of RNA polymerase II.Q39442921
Mammalian NET-Seq Reveals Genome-wide Nascent Transcription Coupled to RNA ProcessingQ39983735
Molecular Basis of Transcription-Coupled Pre-mRNA CappingQ41605348
P433issue3
P921main subjectRNA analysisQ95588220
P304page(s)413-428
P577publication date2016-02-04
P1433published inNature ProtocolsQ3337109
P1476titleMammalian NET-seq analysis defines nascent RNA profiles and associated RNA processing genome-wide
P478volume11

Reverse relations

cites work (P2860)
Q92836887An Overview of Methodologies in Studying lncRNAs in the High-Throughput Era: When Acronyms ATTACK!
Q93166280Analysis of Mammalian Native Elongating Transcript sequencing (mNET-seq) high-throughput data
Q60044255BRCA2 controls DNA:RNA hybrid level at DSBs by mediating RNase H2 recruitment
Q47111692CDK9-dependent RNA polymerase II pausing controls transcription initiation
Q51513312Co-transcriptional splicing and the CTD code.
Q47358353Damage-induced lncRNAs control the DNA damage response through interaction with DDRNAs at individual double-strand breaks
Q41072256Distinctive Patterns of Transcription and RNA Processing for Human lincRNAs
Q48242855Emerging Properties and Functional Consequences of Noncoding Transcription.
Q90390930Functional transcription promoters at DNA double-strand breaks mediate RNA-driven phase separation of damage-response factors
Q54210115Influenza Virus Mounts a Two-Pronged Attack on Host RNA Polymerase II Transcription.
Q90535608Methods for the analysis of transcriptome dynamics
Q39211326Pause & go: from the discovery of RNA polymerase pausing to its functional implications.
Q64935051R-loop formation during S phase is restricted by PrimPol-mediated repriming.
Q58599873RNA Polymerase II Phosphorylated on CTD Serine 5 Interacts with the Spliceosome during Co-transcriptional Splicing
Q49547358RNA polymerase II is released from the DNA template during transcription-coupled repair in mammalian cells.
Q92154119RNA sequencing: the teenage years
Q58582157Saccharomyces cerevisiae Metabolic Labeling with 4-thiouracil and the Quantification of Newly Synthesized mRNA As a Proxy for RNA Polymerase II Activity
Q64077206Selective Roles of Vertebrate PCF11 in Premature and Full-Length Transcript Termination
Q61450670Temporospatial guidance of activity-dependent gene expression by microRNA: mechanisms and functional implications for neural plasticity
Q92534361The pause-initiation limit restricts transcription activation in human cells
Q52321922Transcriptional coactivator PGC-1α contains a novel CBP80-binding motif that orchestrates efficient target gene expression.
Q64230199Tyrosine kinase c-Abl couples RNA polymerase II transcription to DNA double-strand breaks
Q47340297WNK1 kinase and the termination factor PCF11 connect nuclear mRNA export with transcription.
Q90025192Widespread Backtracking by RNA Pol II Is a Major Effector of Gene Activation, 5' Pause Release, Termination, and Transcription Elongation Rate
Q90597084Widespread RNA editing dysregulation in brains from autistic individuals
Q50064038Xrn2 accelerates termination by RNA polymerase II, which is underpinned by CPSF73 activity.

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