Contributions of regulated transcription and mRNA decay to the dynamics of gene expression
出版年份 2018 全文链接
标题
Contributions of regulated transcription and mRNA decay to the dynamics of gene expression
作者
关键词
-
出版物
Wiley Interdisciplinary Reviews-RNA
Volume 10, Issue 1, Pages e1508
出版商
Wiley
发表日期
2018-10-02
DOI
10.1002/wrna.1508
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。- The Human Transcription Factors
- (2018) Samuel A. Lambert et al. CELL
- Assessing sufficiency and necessity of enhancer activities for gene expression and the mechanisms of transcription activation
- (2018) Rui R. Catarino et al. GENES & DEVELOPMENT
- Sequence, Structure, and Context Preferences of Human RNA Binding Proteins
- (2018) Daniel Dominguez et al. MOLECULAR CELL
- A protein activity assay to measure global transcription factor activity reveals determinants of chromatin accessibility
- (2018) Bei Wei et al. NATURE BIOTECHNOLOGY
- TimeLapse-seq: adding a temporal dimension to RNA sequencing through nucleoside recoding
- (2018) Jeremy A Schofield et al. NATURE METHODS
- Capturing the interactome of newly transcribed RNA
- (2018) Xichen Bao et al. NATURE METHODS
- A brave new world of RNA-binding proteins
- (2018) Matthias W. Hentze et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- DRUID: a pipeline for transcriptome-wide measurements of mRNA stability
- (2018) Andrew Lugowski et al. RNA
- SLAM-seq defines direct gene-regulatory functions of the BRD4-MYC axis
- (2018) Matthias Muhar et al. SCIENCE
- PolyA tracks, polybasic peptides, poly-translational hurdles
- (2018) Laura L. Arthur et al. Wiley Interdisciplinary Reviews-RNA
- Metabolic labeling and recovery of nascent RNA to accurately quantify mRNA stability
- (2017) Joseph Russo et al. METHODS
- RNAcompete methodology and application to determine sequence preferences of unconventional RNA-binding proteins
- (2017) Debashish Ray et al. METHODS
- The Dynamics of mRNA Turnover Revealed by Single-Molecule Imaging in Single Cells
- (2017) Ivana Horvathova et al. MOLECULAR CELL
- TT‐seq captures enhancer landscapes immediately after T‐cell stimulation
- (2017) Margaux Michel et al. Molecular Systems Biology
- An improved MS2 system for accurate reporting of the mRNA life cycle
- (2017) Evelina Tutucci et al. NATURE METHODS
- Thiol-linked alkylation of RNA to assess expression dynamics
- (2017) Veronika A Herzog et al. NATURE METHODS
- Codon optimality, bias and usage in translation and mRNA decay
- (2017) Gavin Hanson et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- TFClass: expanding the classification of human transcription factors to their mammalian orthologs
- (2017) Edgar Wingender et al. NUCLEIC ACIDS RESEARCH
- A mouse tissue transcription factor atlas
- (2017) Quan Zhou et al. Nature Communications
- Comprehensive analysis of nucleocytoplasmic dynamics of mRNA in Drosophila cells
- (2017) Tao Chen et al. PLoS Genetics
- Advances and challenges in the detection of transcriptome-wide protein-RNA interactions
- (2017) Emily C. Wheeler et al. Wiley Interdisciplinary Reviews-RNA
- Network-based approaches for analysis of complex biological systems
- (2016) Deborah Chasman et al. CURRENT OPINION IN BIOTECHNOLOGY
- Understanding transcriptional regulatory networks using computational models
- (2016) Bing He et al. CURRENT OPINION IN GENETICS & DEVELOPMENT
- A GC-rich sequence feature in the 3′ UTR directs UPF1-dependent mRNA decay in mammalian cells
- (2016) Naoto Imamachi et al. GENOME RESEARCH
- Models of human core transcriptional regulatory circuitries
- (2016) Violaine Saint-André et al. GENOME RESEARCH
- High-Resolution Mapping of RNA-Binding Regions in the Nuclear Proteome of Embryonic Stem Cells
- (2016) Chongsheng He et al. MOLECULAR CELL
- Nanoscale imaging of RNA with expansion microscopy
- (2016) Fei Chen et al. NATURE METHODS
- Absolute quantitative measurement of transcriptional kinetic parametersin vivo
- (2016) Sukanya Iyer et al. NUCLEIC ACIDS RESEARCH
- GTRD: a database of transcription factor binding sites identified by ChIP-seq experiments
- (2016) Ivan Yevshin et al. NUCLEIC ACIDS RESEARCH
- POSTAR: a platform for exploring post-transcriptional regulation coordinated by RNA-binding proteins
- (2016) Boqin Hu et al. NUCLEIC ACIDS RESEARCH
- TT-seq maps the human transient transcriptome
- (2016) Björn Schwalb et al. SCIENCE
- Serial interactome capture of the human cell nucleus
- (2016) Thomas Conrad et al. Nature Communications
- Inference of gene regulation functions from dynamic transcriptome data
- (2016) Patrick Hillenbrand et al. eLife
- INSPEcT: a computational tool to infer mRNA synthesis, processing and degradation dynamics from RNA- and 4sU-seq time course experiments
- (2015) Stefano de Pretis et al. BIOINFORMATICS
- CLIPdb: a CLIP-seq database for protein-RNA interactions
- (2015) Yu-Cheng T Yang et al. BMC GENOMICS
- Analysis of RNA decay factor mediated RNA stability contributions on RNA abundance
- (2015) Sho Maekawa et al. BMC GENOMICS
- Tracking Distinct RNA Populations Using Efficient and Reversible Covalent Chemistry
- (2015) Erin E. Duffy et al. MOLECULAR CELL
- Spatially resolved, highly multiplexed RNA profiling in single cells
- (2015) K. H. Chen et al. SCIENCE
- Transcription factor trapping by RNA in gene regulatory elements
- (2015) A. A. Sigova et al. SCIENCE
- Kinetics effects and modeling of mRNA turnover
- (2015) Maria Concetta Palumbo et al. Wiley Interdisciplinary Reviews-RNA
- Large-Scale Genetic Perturbations Reveal Regulatory Networks and an Abundance of Gene-Specific Repressors
- (2014) Patrick Kemmeren et al. CELL
- High-Resolution Sequencing and Modeling Identifies Distinct Dynamic RNA Regulatory Strategies
- (2014) Michal Rabani et al. CELL
- Determination and Inference of Eukaryotic Transcription Factor Sequence Specificity
- (2014) Matthew T. Weirauch et al. CELL
- Transcriptome-Based Network Analysis Reveals a Spectrum Model of Human Macrophage Activation
- (2014) Jia Xue et al. IMMUNITY
- Periodic mRNA synthesis and degradation co-operate during cell cycle gene expression
- (2014) P. Eser et al. Molecular Systems Biology
- A census of human RNA-binding proteins
- (2014) Stefanie Gerstberger et al. NATURE REVIEWS GENETICS
- Transcriptional enhancers: from properties to genome-wide predictions
- (2014) Daria Shlyueva et al. NATURE REVIEWS GENETICS
- Highly Multiplexed Subcellular RNA Sequencing in Situ
- (2014) J. H. Lee et al. SCIENCE
- Post-transcriptional RNA regulons affecting cell cycle and proliferation
- (2014) Jeff G. Blackinton et al. SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY
- Genome-wide analysis of the human p53 transcriptional network unveils a lncRNA tumour suppressor signature
- (2014) Yolanda Sánchez et al. Nature Communications
- Cytoplasmic 5′-3′ exonuclease Xrn1p is also a genome-wide transcription factor in yeast
- (2014) Daniel A. Medina et al. Frontiers in Genetics
- The fate of the messenger is pre-determined: A new model for regulation of gene expression
- (2013) Gal Haimovich et al. Biochimica et Biophysica Acta-Gene Regulatory Mechanisms
- Gene Expression Is Circular: Factors for mRNA Degradation Also Foster mRNA Synthesis
- (2013) Gal Haimovich et al. CELL
- Mapping functional transcription factor networks from gene expression data
- (2013) B. C. Haynes et al. GENOME RESEARCH
- Design Principles of Regulatory Networks: Searching for the Molecular Algorithms of the Cell
- (2013) Wendell A. Lim et al. MOLECULAR CELL
- Global Analysis of Eukaryotic mRNA Degradation Reveals Xrn1-Dependent Buffering of Transcript Levels
- (2013) Mai Sun et al. MOLECULAR CELL
- Mapping of Mitochondrial RNA-Protein Interactions by Digital RNase Footprinting
- (2013) Ganqiang Liu et al. Cell Reports
- Core Transcriptional Regulatory Circuit Controlled by the TAL1 Complex in Human T Cell Acute Lymphoblastic Leukemia
- (2012) Takaomi Sanda et al. CANCER CELL
- Insights into RNA Biology from an Atlas of Mammalian mRNA-Binding Proteins
- (2012) Alfredo Castello et al. CELL
- Genome-wide determination of RNA stability reveals hundreds of short-lived noncoding transcripts in mammals
- (2012) H. Tani et al. GENOME RESEARCH
- ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
- (2012) S. G. Landt et al. GENOME RESEARCH
- Comparative dynamic transcriptome analysis (cDTA) reveals mutual feedback between mRNA synthesis and degradation
- (2012) M. Sun et al. GENOME RESEARCH
- Constructing Logical Models of Gene Regulatory Networks by Integrating Transcription Factor–DNA Interactions with Expression Data: An Entropy-Based Approach
- (2012) Guy Karlebach et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- The mRNA-Bound Proteome and Its Global Occupancy Profile on Protein-Coding Transcripts
- (2012) Alexander G. Baltz et al. MOLECULAR CELL
- Wisdom of crowds for robust gene network inference
- (2012) Daniel Marbach et al. NATURE METHODS
- Single-molecule analysis of gene expression using two-color RNA labeling in live yeast
- (2012) Sami Hocine et al. NATURE METHODS
- Transcription factors: from enhancer binding to developmental control
- (2012) François Spitz et al. NATURE REVIEWS GENETICS
- Promoter Elements Regulate Cytoplasmic mRNA Decay
- (2011) Almog Bregman et al. CELL
- Single-Molecule mRNA Decay Measurements Reveal Promoter- Regulated mRNA Stability in Yeast
- (2011) Tatjana Trcek et al. CELL
- Impulse Control: Temporal Dynamics in Gene Transcription
- (2011) Nir Yosef et al. CELL
- Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast
- (2011) C. Miller et al. Molecular Systems Biology
- Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells
- (2011) Michal Rabani et al. NATURE BIOTECHNOLOGY
- Transcriptional gene network inference from a massive dataset elucidates transcriptome organization and gene function
- (2011) Vincenzo Belcastro et al. NUCLEIC ACIDS RESEARCH
- Regulation of mRNA Translation and Stability by microRNAs
- (2010) Marc Robert Fabian et al. Annual Review of Biochemistry
- Major role for mRNA stability in shaping the kinetics of gene induction
- (2010) Ran Elkon et al. BMC GENOMICS
- An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man
- (2010) Timothy Ravasi et al. CELL
- Decapping Activators in Saccharomyces cerevisiae Act by Multiple Mechanisms
- (2010) Tracy Nissan et al. MOLECULAR CELL
- Advantages and limitations of current network inference methods
- (2010) Riet De Smet et al. NATURE REVIEWS MICROBIOLOGY
- Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE
- (2010) et al. SCIENCE
- Timing of Gene Expression Responses to Environmental Changes
- (2009) Gal Chechik et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- The transcriptional network for mesenchymal transformation of brain tumours
- (2009) Maria Stella Carro et al. NATURE
- An auxin-based degron system for the rapid depletion of proteins in nonplant cells
- (2009) Kohei Nishimura et al. NATURE METHODS
- Conserved principles of mammalian transcriptional regulation revealed by RNA half-life
- (2009) Caroline C. Friedel et al. NUCLEIC ACIDS RESEARCH
- Unbiased RNA-protein interaction screen by quantitative proteomics
- (2009) F. Butter et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Specific and global regulation of mRNA stability during osmotic stress in Saccharomyces cerevisiae
- (2009) L. Romero-Santacreu et al. RNA
- Unbiased Reconstruction of a Mammalian Transcriptional Network Mediating Pathogen Responses
- (2009) I. Amit et al. SCIENCE
- TFCat: the curated catalog of mouse and human transcription factors
- (2009) Debra L Fulton et al. GENOME BIOLOGY
- An Extended Transcriptional Network for Pluripotency of Embryonic Stem Cells
- (2008) Jonghwan Kim et al. CELL
- Transcription in the nucleus and mRNA decay in the cytoplasm are coupled processes
- (2008) V. Goler-Baron et al. GENES & DEVELOPMENT
- Transient transcriptional responses to stress are generated by opposing effects of mRNA production and degradation
- (2008) Ophir Shalem et al. Molecular Systems Biology
- Imaging individual mRNA molecules using multiple singly labeled probes
- (2008) Arjun Raj et al. NATURE METHODS
- Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation
- (2008) Luis López-Maury et al. NATURE REVIEWS GENETICS
- Genome-wide transcriptional analysis of the human cell cycle identifies genes differentially regulated in normal and cancer cells
- (2008) Z. Bar-Joseph et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Exploring RNA transcription and turnover in vivo by using click chemistry
- (2008) C. Y. Jao et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay
- (2008) L. Dolken et al. RNA
- Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters
- (2008) Leighton J. Core et al. SCIENCE
- Diverse RNA-Binding Proteins Interact with Functionally Related Sets of RNAs, Suggesting an Extensive Regulatory System
- (2008) Daniel J Hogan et al. PLOS BIOLOGY
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