Programmable mammalian translational modulators by CRISPR-associated proteins

PERSIST platform provides programmable RNA regulation using CRISPR endoRNases

(2022) Breanna DiAndreth et al.   Nature Communications

Programmable RNA editing with compact CRISPR–Cas13 systems from uncultivated microbes

(2021) Chunlong Xu et al.   NATURE METHODS

The COMET toolkit for composing customizable genetic programs in mammalian cells

(2020) Patrick S. Donahue et al.   Nature Communications

Daisy Chain Topology Based Mammalian Synthetic Circuits for RNA-Only Delivery

(2020) Kaiyu Liu et al.   ACS Synthetic Biology

Anti-CRISPR protein applications: natural brakes for CRISPR-Cas technologies

(2020) Nicole D. Marino et al.   NATURE METHODS

De novo design of protein logic gates

(2020) Zibo Chen et al.   SCIENCE

Caliciviral protein-based artificial translational activator for mammalian gene circuits with RNA-only delivery

(2020) Hideyuki Nakanishi et al.   Nature Communications

mRNAs, proteins and the emerging principles of gene expression control

(2020) Christopher Buccitelli et al.   NATURE REVIEWS GENETICS

Artificial Protein-Responsive Riboswitches Upregulate Non-AUG Translation Initiation in Yeast

(2020) Fumihiro Horie et al.   ACS Synthetic Biology

Characterization and mitigation of gene expression burden in mammalian cells

(2020) Timothy Frei et al.   Nature Communications

Meganuclease-Based Artificial Transcription Factors

(2020) Shingo Suzuki et al.   ACS Synthetic Biology

Controlling and enhancing CRISPR systems

(2020) Haridha Shivram et al.   Nature Chemical Biology

CRISPR-Cas9 Circular Permutants as Programmable Scaffolds for Genome Modification

(2019) Benjamin L. Oakes et al.   CELL

A CRISPR/Cas9-based central processing unit to program complex logic computation in human cells

(2019) Hyojin Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Diverse Mechanisms of CRISPR-Cas9 Inhibition by Type IIC Anti-CRISPR Proteins

(2019) Yalan Zhu et al.   MOLECULAR CELL

A High-Throughput Platform to Identify Small-Molecule Inhibitors of CRISPR-Cas9

(2019) Basudeb Maji et al.   CELL

Genetic circuits to engineer tissues with alternative functions

(2019) C. P. Healy et al.   Journal of Biological Engineering

Multiplexed genome engineering by Cas12a and CRISPR arrays encoded on single transcripts

(2019) Carlo C. Campa et al.   NATURE METHODS

Evolutionary classification of CRISPR–Cas systems: a burst of class 2 and derived variants

(2019) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

Orthogonal Protein-Responsive mRNA Switches for Mammalian Synthetic Biology

(2019) Hiroki Ono et al.   ACS Synthetic Biology

Programming gene and engineered-cell therapies with synthetic biology

(2018) Tasuku Kitada et al.   SCIENCE

DNA-based memory devices for recording cellular events

(2018) Ravi U. Sheth et al.   NATURE REVIEWS GENETICS

Programmable protein circuits in living cells

(2018) Xiaojing J. Gao et al.   SCIENCE

Small-molecule-based regulation of RNA-delivered circuits in mammalian cells

(2018) Tyler E. Wagner et al.   Nature Chemical Biology

Design of fast proteolysis-based signaling and logic circuits in mammalian cells

(2018) Tina Fink et al.   Nature Chemical Biology

Engineering protein-protein devices for multilayered regulation of mRNA translation using orthogonal proteases in mammalian cells

(2018) Federica Cella et al.   Nature Communications

Synthetic RNA-based logic computation in mammalian cells

(2018) Satoshi Matsuura et al.   Nature Communications

Large-scale design of robust genetic circuits with multiple inputs and outputs for mammalian cells

(2017) Benjamin H Weinberg et al.   NATURE BIOTECHNOLOGY

Cpf1 proteins excise CRISPR RNAs from mRNA transcripts in mammalian cells

(2017) Guocai Zhong et al.   Nature Chemical Biology

Diversity and evolution of class 2 CRISPR–Cas systems

(2017) Sergey Shmakov et al.   NATURE REVIEWS MICROBIOLOGY

Synthetic mRNA devices that detect endogenous proteins and distinguish mammalian cells

(2017) Shunsuke Kawasaki et al.   NUCLEIC ACIDS RESEARCH

RIP-Seq Suggests Translational Regulation by L7Ae in Archaea

(2017) Michael Daume et al.   mBio

CRISPR/Cas9 in Genome Editing and Beyond

(2016) Haifeng Wang et al.   Annual Review of Biochemistry

Structure and Engineering of Francisella novicida Cas9

(2016) Hisato Hirano et al.   CELL

Engineering the AAVS1 locus for consistent and scalable transgene expression in human iPSCs and their differentiated derivatives

(2016) Fabian Oceguera-Yanez et al.   METHODS

The CRISPR-associated DNA-cleaving enzyme Cpf1 also processes precursor CRISPR RNA

(2016) Ines Fonfara et al.   NATURE

Two distinct RNase activities of CRISPR-C2c2 enable guide-RNA processing and RNA detection

(2016) Alexandra East-Seletsky et al.   NATURE

Multiplex gene editing by CRISPR–Cpf1 using a single crRNA array

(2016) Bernd Zetsche et al.   NATURE BIOTECHNOLOGY

Integration and exchange of split dCas9 domains for transcriptional controls in mammalian cells

(2016) Dacheng Ma et al.   Nature Communications

Mammalian designer cells: Engineering principles and biomedical applications

(2015) Mingqi Xie et al.   Biotechnology Journal

Cpf1 Is a Single RNA-Guided Endonuclease of a Class 2 CRISPR-Cas System

(2015) Bernd Zetsche et al.   CELL

In vivo genome editing using Staphylococcus aureus Cas9

(2015) F. Ann Ran et al.   NATURE

Mammalian synthetic circuits with RNA binding proteins for RNA-only delivery

(2015) Liliana Wroblewska et al.   NATURE BIOTECHNOLOGY

A split-Cas9 architecture for inducible genome editing and transcription modulation

(2015) Bernd Zetsche et al.   NATURE BIOTECHNOLOGY

Photoactivatable CRISPR-Cas9 for optogenetic genome editing

(2015) Yuta Nihongaki et al.   NATURE BIOTECHNOLOGY

Modular construction of mammalian gene circuits using TALE transcriptional repressors

(2015) Yinqing Li et al.   Nature Chemical Biology

Highly efficient Cas9-mediated transcriptional programming

(2015) Alejandro Chavez et al.   NATURE METHODS

Controlling mRNA stability and translation with the CRISPR endoribonuclease Csy4

(2015) Erin K. Borchardt et al.   RNA

Mammalian designer cells: Engineering principles and biomedical applications

(2015) Mingqi Xie et al.   Biotechnology Journal

Multiplexed and Programmable Regulation of Gene Networks with an Integrated RNA and CRISPR/Cas Toolkit in Human Cells

(2014) Lior Nissim et al.   MOLECULAR CELL

CRISPR-Mediated Modular RNA-Guided Regulation of Transcription in Eukaryotes

(2013) Luke A. Gilbert et al.   CELL

Self-processing of ribozyme-flanked RNAs into guide RNAsin vitroandin vivofor CRISPR-mediated genome editing

(2013) Yangbin Gao et al.   Journal of Integrative Plant Biology

RNA-guided gene activation by CRISPR-Cas9–based transcription factors

(2013) Pablo Perez-Pinera et al.   NATURE METHODS

RNA-Guided Human Genome Engineering via Cas9

(2013) P. Mali et al.   SCIENCE

Multiplex Genome Engineering Using CRISPR/Cas Systems

(2013) L. Cong et al.   SCIENCE

A versatile cis-acting inverter module for synthetic translational switches

(2013) Kei Endo et al.   Nature Communications

A triple helix stabilizes the 3' ends of long noncoding RNAs that lack poly(A) tails

(2012) J. E. Wilusz et al.   GENES & DEVELOPMENT

Programmable single-cell mammalian biocomputers

(2012) Simon Ausländer et al.   NATURE

A tunable zinc finger-based framework for Boolean logic computation in mammalian cells

(2012) Jason J. Lohmueller et al.   NUCLEIC ACIDS RESEARCH

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

An engineered mammalian band-pass network

(2010) D. Greber et al.   NUCLEIC ACIDS RESEARCH

A tunable synthetic mammalian oscillator

(2009) Marcel Tigges et al.   NATURE

Synthetic translational regulation by an L7Ae–kink-turn RNP switch

(2009) Hirohide Saito et al.   Nature Chemical Biology