标题
Probing steps in DNA transcription using single-molecule methods
作者
关键词
FRET, PIFE, transcription, magnetic tweezer, optical tweezer, atomic force microscopy
出版物
JOURNAL OF BIOLOGICAL CHEMISTRY
Volume 297, Issue 3, Pages 101086
出版商
Elsevier BV
发表日期
2021-08-15
DOI
10.1016/j.jbc.2021.101086
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。- A novel high-throughput single-molecule technique: DNA curtain
- (2021) Jongjin Cha et al. JOURNAL OF THE KOREAN PHYSICAL SOCIETY
- Closing and opening of the RNA polymerase trigger loop
- (2020) Abhishek Mazumder et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- R-loop induced G-quadruplex in non-template promotes transcription by successive R-loop formation
- (2020) Chun-Ying Lee et al. Nature Communications
- Single-molecule fluorescence studies on cotranscriptional G-quadruplex formation coupled with R-loop formation
- (2020) Gunhyoung Lim et al. NUCLEIC ACIDS RESEARCH
- The elemental mechanism of transcriptional pausing
- (2019) Jason Saba et al. eLife
- Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH+
- (2019) Chee-Huat Linus Eng et al. NATURE
- Transcription activation in bacteria: ancient and modern
- (2019) Stephen J. W. Busby MICROBIOLOGY-SGM
- Single-molecule approach for studying Pol II transcription initiation using magnetic tweezers
- (2019) Eric J. Tomko et al. METHODS
- Promoter-proximal pausing of RNA polymerase II: a nexus of gene regulation
- (2019) Leighton Core et al. GENES & DEVELOPMENT
- Mechanisms of Bacterial Transcription Termination
- (2019) Jeffrey W. Roberts JOURNAL OF MOLECULAR BIOLOGY
- Mechanisms of Transcriptional Pausing in Bacteria
- (2019) Jin Young Kang et al. JOURNAL OF MOLECULAR BIOLOGY
- A Single-Molecule View of Archaeal Transcription
- (2019) Kevin Kramm et al. JOURNAL OF MOLECULAR BIOLOGY
- Single-molecule characterization of extrinsic transcription termination by Sen1 helicase
- (2019) S. Wang et al. Nature Communications
- Organization and regulation of gene transcription
- (2019) Patrick Cramer NATURE
- Loss of Dynamic RNA Interaction and Aberrant Phase Separation Induced by Two Distinct Types of ALS/FTD-Linked FUS Mutations
- (2019) Amirhossein Ghanbari Niaki et al. MOLECULAR CELL
- Imaging mRNA In Vivo, from Birth to Death
- (2018) Evelina Tutucci et al. Annual Review of Biophysics
- The cryo-EM resolution revolution and transcription complexes
- (2018) Jonas Hanske et al. CURRENT OPINION IN STRUCTURAL BIOLOGY
- Visualizing transcription factor dynamics in living cells
- (2018) Zhe Liu et al. JOURNAL OF CELL BIOLOGY
- Correlating Transcription Initiation and Conformational Changes by a Single-Subunit RNA Polymerase with Near Base-Pair Resolution
- (2018) Hye Ran Koh et al. MOLECULAR CELL
- Three-dimensional intact-tissue sequencing of single-cell transcriptional states
- (2018) Xiao Wang et al. SCIENCE
- Toward dynamic structural biology: Two decades of single-molecule Förster resonance energy transfer
- (2018) Eitan Lerner et al. SCIENCE
- Role of Macromolecular Crowding on the Intracellular Diffusion of DNA Binding Proteins
- (2018) Pinki Dey et al. Scientific Reports
- Single-molecule analysis reveals the mechanism of transcription activation in M. tuberculosis
- (2018) Rishi Kishore Vishwakarma et al. Science Advances
- Mimicking Co-Transcriptional RNA Folding Using a Superhelicase
- (2018) Boyang Hua et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- Bacteriophage T7 transcription system: an enabling tool in synthetic biology
- (2018) Wenya Wang et al. BIOTECHNOLOGY ADVANCES
- TFIIH generates a six-base-pair open complex during RNAP II transcription initiation and start-site scanning
- (2017) Eric J Tomko et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Studying transcription initiation by RNA polymerase with diffusion-based single-molecule fluorescence
- (2017) Yazan Alhadid et al. PROTEIN SCIENCE
- TFIIH generates a six-base-pair open complex during RNAP II transcription initiation and start-site scanning
- (2017) Eric J Tomko et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Mechanisms of Bacterial Transcription Termination: All Good Things Must End
- (2016) Ananya Ray-Soni et al. Annual Review of Biochemistry
- Single-Cell and Single-Molecule Analysis of Gene Expression Regulation
- (2016) Maria Vera et al. Annual Review of Genetics
- Dephosphorylating eukaryotic RNA polymerase II
- (2016) Joshua E. Mayfield et al. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
- Rapid dynamics of general transcription factor TFIIB binding during preinitiation complex assembly revealed by single-molecule analysis
- (2016) Zhengjian Zhang et al. GENES & DEVELOPMENT
- What have single-molecule studies taught us about gene expression?
- (2016) Huimin Chen et al. GENES & DEVELOPMENT
- NusG Is a Sequence-specific RNA Polymerase Pause Factor That Binds to the Non-template DNA within the Paused Transcription Bubble
- (2016) Alexander V. Yakhnin et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- A Quantitative Theoretical Framework For Protein-Induced Fluorescence Enhancement–Förster-Type Resonance Energy Transfer (PIFE-FRET)
- (2016) Eitan Lerner et al. JOURNAL OF PHYSICAL CHEMISTRY B
- RNA Scanning of a Molecular Machine with a Built-in Ruler
- (2016) Hye Ran Koh et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- RNA Polymerase Pausing during Initial Transcription
- (2016) Diego Duchi et al. MOLECULAR CELL
- Local and global regulation of transcription initiation in bacteria
- (2016) Douglas F. Browning et al. NATURE REVIEWS MICROBIOLOGY
- Nucleosomal arrangement affects single-molecule transcription dynamics
- (2016) Veronika Fitz et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- High-performance multiplexed fluorescence in situ hybridization in culture and tissue with matrix imprinting and clearing
- (2016) Jeffrey R. Moffitt et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Transcription Termination: Variations on Common Themes
- (2016) Odil Porrua et al. TRENDS IN GENETICS
- Demystifying PIFE: The Photophysics Behind the Protein-Induced Fluorescence Enhancement Phenomenon in Cy3
- (2015) Elana M. S. Stennett et al. Journal of Physical Chemistry Letters
- Crystal Structure of a Transcribing RNA Polymerase II Complex Reveals a Complete Transcription Bubble
- (2015) Christopher O. Barnes et al. MOLECULAR CELL
- Simultaneous Single-Molecule Force and Fluorescence Sampling of DNA Nanostructure Conformations Using Magnetic Tweezers
- (2015) Felix E. Kemmerich et al. NANO LETTERS
- Real-time observation of the initiation of RNA polymerase II transcription
- (2015) Furqan M. Fazal et al. NATURE
- Subangstrom single-molecule measurements of motor proteins using a nanopore
- (2015) Ian M Derrington et al. NATURE BIOTECHNOLOGY
- Transcription termination and the control of the transcriptome: why, where and how to stop
- (2015) Odil Porrua et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Structural basis of transcription initiation by RNA polymerase II
- (2015) Sarah Sainsbury et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- G-quadruplex formation in double strand DNA probed by NMM and CV fluorescence
- (2015) Alex Kreig et al. NUCLEIC ACIDS RESEARCH
- Spatially resolved, highly multiplexed RNA profiling in single cells
- (2015) K. H. Chen et al. SCIENCE
- Molecular Mechanism of Resolving Trinucleotide Repeat Hairpin by Helicases
- (2015) Yupeng Qiu et al. STRUCTURE
- Complete architecture of the archaeal RNA polymerase open complex from single-molecule FRET and NPS
- (2015) Julia Nagy et al. Nature Communications
- Strength in numbers: quantitative single-molecule RNA detection assays
- (2015) Imre Gaspar et al. Wiley Interdisciplinary Reviews-Developmental Biology
- Optical Tweezers Analysis of DNA–Protein Complexes
- (2014) Iddo Heller et al. CHEMICAL REVIEWS
- Molecular Mechanisms of Transcription through Single-Molecule Experiments
- (2014) Manchuta Dangkulwanich et al. CHEMICAL REVIEWS
- RNA polymerase II pausing during development
- (2014) B. Gaertner et al. DEVELOPMENT
- Repetitive RNA unwinding by RNA helicase A facilitates RNA annealing
- (2014) Hye Ran Koh et al. NUCLEIC ACIDS RESEARCH
- Highly Multiplexed Subcellular RNA Sequencing in Situ
- (2014) J. H. Lee et al. SCIENCE
- Single-molecule tracking of the transcription cycle by sub-second RNA detection
- (2014) Zhengjian Zhang et al. eLife
- Single-molecule tracking in live cells reveals distinct target-search strategies of transcription factors in the nucleus
- (2014) Ignacio Izeddin et al. eLife
- Kinetic competition during the transcription cycle results in stochastic RNA processing
- (2014) Antoine Coulon et al. eLife
- Protein induced fluorescence enhancement (PIFE) for probing protein–nucleic acid interactions
- (2013) Helen Hwang et al. CHEMICAL SOCIETY REVIEWS
- In situ sequencing for RNA analysis in preserved tissue and cells
- (2013) Rongqin Ke et al. NATURE METHODS
- RNA polymerase approaches its promoter without long-range sliding along DNA
- (2013) L. J. Friedman et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Transcription Under Torsion
- (2013) J. Ma et al. SCIENCE
- Systematic Identification of Signal-Activated Stochastic Gene Regulation
- (2013) G. Neuert et al. SCIENCE
- Complete dissection of transcription elongation reveals slow translocation of RNA polymerase II in a linear ratchet mechanism
- (2013) Manchuta Dangkulwanich et al. eLife
- The transcription cycle in eukaryotes: From productive initiation to RNA polymerase II recycling
- (2012) Jayasha Shandilya et al. Biochimica et Biophysica Acta-Gene Regulatory Mechanisms
- RNA polymerase II transcription: Structure and mechanism
- (2012) Xin Liu et al. Biochimica et Biophysica Acta-Gene Regulatory Mechanisms
- CoSMoS Unravels Mysteries of Transcription Initiation
- (2012) Richard L. Gourse et al. CELL
- Mechanism of Transcription Initiation at an Activator-Dependent Promoter Defined by Single-Molecule Observation
- (2012) Larry J. Friedman et al. CELL
- Fast microscopical dissection of action scenes played byEscherichia coliRNA polymerase
- (2012) Yuki Suzuki et al. FEBS LETTERS
- Transcription initiation by human RNA polymerase II visualized at single-molecule resolution
- (2012) A. Revyakin et al. GENES & DEVELOPMENT
- Binding and Translocation of Termination Factor Rho Studied at the Single-Molecule Level
- (2012) Daniel J. Koslover et al. JOURNAL OF MOLECULAR BIOLOGY
- Nanopore Detection of Single Molecule RNAP–DNA Transcription Complex
- (2012) C. Raillon et al. NANO LETTERS
- Transcription factors: from enhancer binding to developmental control
- (2012) François Spitz et al. NATURE REVIEWS GENETICS
- The promoter-search mechanism of Escherichia coli RNA polymerase is dominated by three-dimensional diffusion
- (2012) Feng Wang et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Single-molecule studies of DNA transcription using atomic force microscopy
- (2012) Daniel J Billingsley et al. PHYSICAL BIOLOGY
- Trigger loop dynamics mediate the balance between the transcriptional fidelity and speed of RNA polymerase II
- (2012) M. H. Larson et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Direct Observation of Cotranscriptional Folding in an Adenine Riboswitch
- (2012) K. L. Frieda et al. SCIENCE
- Opening and Closing of the Bacterial RNA Polymerase Clamp
- (2012) A. Chakraborty et al. SCIENCE
- Protein sliding and DNA denaturation are essential for DNA organization by human mitochondrial transcription factor A
- (2012) Géraldine Farge et al. Nature Communications
- Single-Molecule Studies of Transcription: From One RNA Polymerase at a Time to the Gene Expression Profile of a Cell
- (2011) Feng Wang et al. JOURNAL OF MOLECULAR BIOLOGY
- Mechanism of Bacterial Transcription Initiation: RNA Polymerase - Promoter Binding, Isomerization to Initiation-Competent Open Complexes, and Initiation of RNA Synthesis
- (2011) Ruth M. Saecker et al. JOURNAL OF MOLECULAR BIOLOGY
- Applied Force Provides Insight into Transcriptional Pausing and Its Modulation by Transcription Factor NusA
- (2011) Jing Zhou et al. MOLECULAR CELL
- Single-Molecule Studies of RNA Polymerase: One Singular Sensation, Every Little Step It Takes
- (2011) Matthew H. Larson et al. MOLECULAR CELL
- RNIE: genome-wide prediction of bacterial intrinsic terminators
- (2011) P. P. Gardner et al. NUCLEIC ACIDS RESEARCH
- Protein induced fluorescence enhancement as a single molecule assay with short distance sensitivity
- (2011) H. Hwang et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Sensing DNA Opening in Transcription Using Quenchable Förster Resonance Energy Transfer
- (2010) Thorben Cordes et al. BIOCHEMISTRY
- Single-molecule Measurements of DNA Topology and Topoisomerases
- (2010) Keir C. Neuman JOURNAL OF BIOLOGICAL CHEMISTRY
- Fluorescent Lifetime Trajectories of a Single Fluorophore Reveal Reaction Intermediates During Transcription Initiation
- (2009) Maria Sorokina et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- Real-time observation of the transition from transcription initiation to elongation of the RNA polymerase
- (2009) Guo-Qing Tang et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Single-Molecule Studies of RNA Polymerase: Motoring Along
- (2008) Kristina M. Herbert et al. Annual Review of Biochemistry
- Applied Force Reveals Mechanistic and Energetic Details of Transcription Termination
- (2008) Matthew H. Larson et al. CELL
- A practical guide to single-molecule FRET
- (2008) Rahul Roy et al. NATURE METHODS
- The Structure of a Transcribing T7 RNA Polymerase in Transition from Initiation to Elongation
- (2008) K. J. Durniak et al. SCIENCE
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