Genome-wide profiling of RNA polymerase transcription at nucleotide resolution in human cells with native elongating transcript sequencing
出版年份 2016 全文链接
标题
Genome-wide profiling of RNA polymerase transcription at nucleotide resolution in human cells with native elongating transcript sequencing
作者
关键词
-
出版物
Nature Protocols
Volume 11, Issue 4, Pages 813-833
出版商
Springer Nature
发表日期
2016-03-24
DOI
10.1038/nprot.2016.047
参考文献
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。- Native Elongating Transcript Sequencing Reveals Human Transcriptional Activity at Nucleotide Resolution
- (2015) Andreas Mayer et al. CELL
- Mammalian NET-Seq Reveals Genome-wide Nascent Transcription Coupled to RNA Processing
- (2015) Takayuki Nojima et al. CELL
- Bidirectional Transcription Arises from Two Distinct Hubs of Transcription Factor Binding and Active Chromatin
- (2015) Benjamin S. Scruggs et al. MOLECULAR CELL
- ChIP-nexus enables improved detection of in vivo transcription factor binding footprints
- (2015) Qiye He et al. NATURE BIOTECHNOLOGY
- Getting up to speed with transcription elongation by RNA polymerase II
- (2015) Iris Jonkers et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- HTSeq--a Python framework to work with high-throughput sequencing data
- (2014) S. Anders et al. BIOINFORMATICS
- Nucleosomes Are Context-Specific, H2A.Z-Modulated Barriers to RNA Polymerase
- (2014) Christopher M. Weber et al. MOLECULAR CELL
- A pause sequence enriched at translation start sites drives transcription dynamics in vivo
- (2014) M. H. Larson et al. SCIENCE
- Interactions between RNA polymerase and the "core recognition element" counteract pausing
- (2014) I. O. Vvedenskaya et al. SCIENCE
- RNA-DNA Differences Are Generated in Human Cells within Seconds after RNA Exits Polymerase II
- (2014) Isabel X. Wang et al. Cell Reports
- Tyrosine phosphorylation of RNA polymerase II CTD is associated with antisense promoter transcription and active enhancers in mammalian cells
- (2014) Nicolas Descostes et al. eLife
- Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons
- (2014) Iris Jonkers et al. eLife
- Signaling Pathways Differentially Affect RNA Polymerase II Initiation, Pausing, and Elongation Rate in Cells
- (2013) Charles G. Danko et al. MOLECULAR CELL
- Dealing with Pervasive Transcription
- (2013) Torben Heick Jensen et al. MOLECULAR CELL
- Promoter directionality is controlled by U1 snRNP and polyadenylation signals
- (2013) Albert E. Almada et al. NATURE
- Gene regulation by antisense transcription
- (2013) Vicent Pelechano et al. NATURE REVIEWS GENETICS
- Polyadenylation site–induced decay of upstream transcripts enforces promoter directionality
- (2013) Evgenia Ntini et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Divergent transcription of long noncoding RNA/mRNA gene pairs in embryonic stem cells
- (2013) A. A. Sigova et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Precise Maps of RNA Polymerase Reveal How Promoters Direct Initiation and Pausing
- (2013) H. Kwak et al. SCIENCE
- “Jump Start and Gain” Model for Dosage Compensation in Drosophila Based on Direct Sequencing of Nascent Transcripts
- (2013) Francesco Ferrari et al. Cell Reports
- STAR: ultrafast universal RNA-seq aligner
- (2012) Alexander Dobin et al. BIOINFORMATICS
- Transcript Dynamics of Proinflammatory Genes Revealed by Sequence Analysis of Subcellular RNA Fractions
- (2012) Dev M. Bhatt et al. CELL
- mRNA Decapping Factors and the Exonuclease Xrn2 Function in Widespread Premature Termination of RNA Polymerase II Transcription
- (2012) Kris Brannan et al. MOLECULAR CELL
- A Universal RNA Polymerase II CTD Cycle Is Orchestrated by Complex Interplays between Kinase, Phosphatase, and Isomerase Enzymes along Genes
- (2012) Alain R. Bataille et al. MOLECULAR CELL
- NIH Image to ImageJ: 25 years of image analysis
- (2012) Caroline A Schneider et al. NATURE METHODS
- The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments
- (2012) Nicholas T Ingolia et al. Nature Protocols
- Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans
- (2012) Karen Adelman et al. NATURE REVIEWS GENETICS
- Defining the Status of RNA Polymerase at Promoters
- (2012) Leighton J. Core et al. Cell Reports
- Divergent transcription: A new feature of active promoters
- (2011) Amy C. Seila et al. CELL CYCLE
- Architecture of the RNA polymerase-Spt4/5 complex and basis of universal transcription processivity
- (2011) Fuensanta W Martinez-Rucobo et al. EMBO JOURNAL
- Nascent-seq indicates widespread cotranscriptional pre-mRNA splicing in Drosophila
- (2011) Y. L. Khodor et al. GENES & DEVELOPMENT
- Nascent transcript sequencing visualizes transcription at nucleotide resolution
- (2011) L. Stirling Churchman et al. NATURE
- Integrative genomics viewer
- (2011) James T Robinson et al. NATURE BIOTECHNOLOGY
- Antisense RNA polymerase II divergent transcripts are P-TEFb dependent and substrates for the RNA exosome
- (2011) R. A. Flynn et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- c-Myc Regulates Transcriptional Pause Release
- (2010) Peter B. Rahl et al. CELL
- Comprehensive Polyadenylation Site Maps in Yeast and Human Reveal Pervasive Alternative Polyadenylation
- (2010) Fatih Ozsolak et al. CELL
- Widespread transcription at neuronal activity-regulated enhancers
- (2010) Tae-Kyung Kim et al. NATURE
- Gene-specific RNA polymerase II phosphorylation and the CTD code
- (2010) Hyunmin Kim et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Chemical-genomic dissection of the CTD code
- (2010) Joshua R Tietjen et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Uniform transitions of the general RNA polymerase II transcription complex
- (2010) Andreas Mayer et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- A Large Fraction of Extragenic RNA Pol II Transcription Sites Overlap Enhancers
- (2010) Francesca De Santa et al. PLOS BIOLOGY
- Detecting transcriptionally engaged RNA polymerase in eukaryotic cells with permanganate genomic footprinting
- (2009) David S. Gilmour et al. METHODS
- Co-transcriptional splicing of constitutive and alternative exons
- (2009) A. Pandya-Jones et al. RNA
- Poised RNA Polymerase II Gives Pause for Thought
- (2008) Thanasis Margaritis et al. CELL
- Structural basis of transcription inhibition by α-amanitin and implications for RNA polymerase II translocation
- (2008) Florian Brueckner et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Divergent Transcription from Active Promoters
- (2008) Amy C. Seila et al. SCIENCE
- RNA Exosome Depletion Reveals Transcription Upstream of Active Human Promoters
- (2008) Pascal Preker et al. SCIENCE
- Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters
- (2008) Leighton J. Core et al. SCIENCE
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