Brave new ‘RNA’ world—advances in RNA tools and their application for understanding and engineering biological systems
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Baiyang Liu | James Chappell | Andrea Ameruoso | Lauren Gambill | Maria Claudia Villegas Kcam | J. Chappell | Baiyang Liu | Lauren Gambill | A. Ameruoso | Maria Claudia Villegas Kcam
[1] Feng Zhang,et al. Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system , 2013, Nucleic acids research.
[2] W. Gilbert,et al. Messenger RNA modifications: Form, distribution, and function , 2016, Science.
[3] Chase L. Beisel,et al. Identifying and Visualizing Functional PAM Diversity across CRISPR-Cas Systems. , 2016, Molecular cell.
[4] Vincent Noireaux,et al. Rapid and Scalable Characterization of CRISPR Technologies Using an E. coli Cell-Free Transcription-Translation System. , 2018, Molecular cell.
[5] Young Je Lee,et al. Multilevel Regulation of Bacterial Gene Expression with the Combined STAR and Antisense RNA System. , 2018, ACS synthetic biology.
[6] Christopher A. Voigt,et al. Balancing gene expression without library construction via a reusable sRNA pool , 2017, Nucleic acids research.
[7] R. Maehr,et al. Functional annotation of native enhancers with a Cas9 -histone demethylase fusion , 2015, Nature Methods.
[8] Michael T. McManus,et al. Dual gene activation and knockout screen reveals directional dependencies in genetic networks , 2018, Nature Biotechnology.
[9] Jesse M. Engreitz,et al. Genome-scale activation screen identifies a lncRNA locus regulating a gene neighbourhood , 2017, Nature.
[10] Christopher A. Voigt,et al. Multi-input CRISPR/Cas genetic circuits that interface host regulatory networks , 2014, Molecular systems biology.
[11] Xun Tang,et al. Distinct timescales of RNA regulators enable the construction of a genetic pulse generator , 2019, Biotechnology and bioengineering.
[12] Xiaoshu Xu,et al. A CRISPR-dCas Toolbox for Genetic Engineering and Synthetic Biology. , 2019, Journal of molecular biology.
[13] Young Je Lee,et al. Establishing a Multivariate Model for Predictable Antisense RNA-Mediated Repression. , 2018, ACS synthetic biology.
[14] L. Nissim,et al. Multiplexed and programmable regulation of gene networks with an integrated RNA and CRISPR/Cas toolkit in human cells. , 2014, Molecular cell.
[15] James Chappell,et al. Creating small transcription activating RNAs. , 2015, Nature chemical biology.
[16] J. Collins,et al. Toehold Switches: De-Novo-Designed Regulators of Gene Expression , 2014, Cell.
[17] Michele Felletti,et al. Twister ribozymes as highly versatile expression platforms for artificial riboswitches , 2016, Nature Communications.
[18] G. Stan,et al. Quantifying cellular capacity identifies gene expression designs with reduced burden , 2015, Nature Methods.
[19] J. Collins,et al. Complex cellular logic computation using ribocomputing devices , 2017, Nature.
[20] James M. Carothers,et al. Digital logic circuits in yeast with CRISPR-dCas9 NOR gates , 2017, Nature Communications.
[21] John S. Hawkins,et al. A Comprehensive, CRISPR-based Functional Analysis of Essential Genes in Bacteria , 2016, Cell.
[22] Alexandra M. Westbrook,et al. Computational design of small transcription activating RNAs for versatile and dynamic gene regulation , 2017, Nature Communications.
[23] Max J. Kellner,et al. RNA editing with CRISPR-Cas13 , 2017, Science.
[24] Zhen Xie,et al. Rationally-designed logic integration of regulatory signals in mammalian cells , 2010, Nature nanotechnology.
[25] Christopher A. Voigt,et al. Engineered dCas9 with reduced toxicity in bacteria: implications for genetic circuit design , 2018, Nucleic acids research.
[26] Raul Rabadan,et al. Reprogramming Eukaryotic Translation with Ligand-Responsive Synthetic RNA Switches , 2016, Nature Methods.
[27] Christopher M. Vockley,et al. Epigenome editing by a CRISPR/Cas9-based acetyltransferase activates genes from promoters and enhancers , 2015, Nature Biotechnology.
[28] R. Weiss,et al. CRISPR transcriptional repression devices and layered circuits in mammalian cells , 2014, Nature Methods.
[29] Max A. Horlbeck,et al. Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation , 2016, eLife.
[30] Luke A. Gilbert,et al. Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression , 2013, Cell.
[31] Julius B. Lucks,et al. Achieving large dynamic range control of gene expression with a compact RNA transcription–translation regulator , 2016, bioRxiv.
[32] Zhen Xie,et al. Pooled CRISPR interference screening enables genome-scale functional genomics study in bacteria with superior performance , 2018, Nature Communications.
[33] Kyle E. Watters,et al. A renaissance in RNA synthetic biology: new mechanisms, applications and tools for the future. , 2015, Current opinion in chemical biology.
[34] H. Salis,et al. Automated physics-based design of synthetic riboswitches from diverse RNA aptamers , 2015, Nucleic acids research.
[35] Oscar A. Negrete,et al. RNA-dependent RNA targeting by CRISPR-Cas9 , 2018, eLife.
[36] Adam P Arkin,et al. Versatile RNA-sensing transcriptional regulators for engineering genetic networks , 2011, Proceedings of the National Academy of Sciences.
[37] Andreas W. K. Harris,et al. Synthetic negative feedback circuits using engineered small RNAs , 2017, bioRxiv.
[38] Niles A. Pierce,et al. Nucleic acid sequence design via efficient ensemble defect optimization , 2011, J. Comput. Chem..
[39] Richard M. Murray,et al. Rapidly Characterizing the Fast Dynamics of RNA Genetic Circuitry with Cell-Free Transcription–Translation (TX-TL) Systems , 2014, ACS synthetic biology.
[40] Aviv Regev,et al. RNA targeting with CRISPR–Cas13 , 2017, Nature.
[41] T. Lu,et al. Randomized CRISPR-Cas Transcriptional Perturbation Screening Reveals Protective Genes against Alpha-Synuclein Toxicity. , 2017, Molecular cell.
[42] Kenichiro Hata,et al. Targeted DNA demethylation in vivo using dCas9–peptide repeat and scFv–TET1 catalytic domain fusions , 2016, Nature Biotechnology.
[43] James J Collins,et al. A low-cost paper-based synthetic biology platform for analyzing gut microbiota and host biomarkers , 2018, Nature Communications.
[44] Christopher A. Voigt,et al. Advances in genetic circuit design: novel biochemistries, deep part mining, and precision gene expression. , 2013, Current opinion in chemical biology.
[45] Sang Yup Lee,et al. Gene Expression Knockdown by Modulating Synthetic Small RNA Expression in Escherichia coli. , 2017, Cell systems.
[46] Peter F. Stadler,et al. Applicability of a computational design approach for synthetic riboswitches , 2016, Nucleic acids research.
[47] Julius B Lucks,et al. Engineering a Functional small RNA Negative Autoregulation Network with Model-guided Design , 2017, bioRxiv.
[48] Eric J Alm,et al. Metagenomic mining of regulatory elements enables programmable species-selective gene expression , 2018, Nature Methods.
[49] Vanja Tadić,et al. Repurposing the CRISPR-Cas9 system for targeted DNA methylation , 2016, Nucleic acids research.
[50] Christopher A. Voigt,et al. Automated Design of Synthetic Ribosome Binding Sites to Precisely Control Protein Expression , 2009, Nature Biotechnology.
[51] J. Carothers,et al. Synthetic CRISPR-Cas gene activators for transcriptional reprogramming in bacteria , 2018, Nature Communications.
[52] Ka-Hei Siu,et al. Riboregulated toehold-gated gRNA for programmable CRISPR–Cas9 function , 2018, Nature Chemical Biology.