Mammalian synthetic biology for studying the cell

Engineering Customized Cell Sensing and Response Behaviors Using Synthetic Notch Receptors

(2016) Leonardo Morsut et al.   CELL

Comparison of Cas9 activators in multiple species

(2016) Alejandro Chavez et al.   NATURE METHODS

Cellular heterogeneity mediates inherent sensitivity–specificity tradeoff in cancer targeting by synthetic circuits

(2016) Mathieu Morel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Whole-organism lineage tracing by combinatorial and cumulative genome editing

(2016) Aaron McKenna et al.   SCIENCE

Dynamics of epigenetic regulation at the single-cell level

(2016) L. Bintu et al.   SCIENCE

Genetically engineering self-organization of human pluripotent stem cells into a liver bud-like tissue using Gata6

(2016) Patrick Guye et al.   Nature Communications

Interrogating cellular fate decisions with high-throughput arrays of multiplexed cellular communities

(2016) Sisi Chen et al.   Nature Communications

Quantitative Analyses of Core Promoters Enable Precise Engineering of Regulated Gene Expression in Mammalian Cells

(2016) Christopher Ede et al.   ACS Synthetic Biology

Benchmarking of TALE- and CRISPR/dCas9-Based Transcriptional Regulators in Mammalian Cells for the Construction of Synthetic Genetic Circuits

(2016) Tina Lebar et al.   ACS Synthetic Biology

Transcriptomics-Guided Design of Synthetic Promoters for a Mammalian System

(2016) Joseph K. Cheng et al.   ACS Synthetic Biology

A synthetic mammalian network to compute population borders based on engineered reciprocal cell-cell communication

(2015) Katja Kolar et al.   BMC Systems Biology

Learning the Sequence Determinants of Alternative Splicing from Millions of Random Sequences

(2015) Alexander B. Rosenberg et al.   CELL

Efficient Detection and Purification of Cell Populations Using Synthetic MicroRNA Switches

(2015) Kenji Miki et al.   Cell Stem Cell

Conditional Control of Alternative Splicing through Light-Triggered Splice-Switching Oligonucleotides

(2015) James Hemphill et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

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

(2015) Liliana Wroblewska et al.   NATURE BIOTECHNOLOGY

DNA sense-and-respond protein modules for mammalian cells

(2015) Shimyn Slomovic et al.   NATURE METHODS

Simple synthetic protein scaffolds can create adjustable artificial MAPK circuits in yeast and mammalian cells

(2015) Jihoon Ryu et al.   Science Signaling

Synthetic lateral inhibition governs cell-type bifurcation with robust ratios

(2015) Mitsuhiro Matsuda et al.   Nature Communications

A general strategy to construct small molecule biosensors in eukaryotes

(2015) Justin Feng et al.   eLife

Simple synthetic protein scaffolds can create adjustable artificial MAPK circuits in yeast and mammalian cells

(2015) Jihoon Ryu et al.   Science Signaling

Engineering dynamic cell cycle control with synthetic small molecule-responsive RNA devices

(2015) Kathy Y. Wei et al.   Journal of Biological Engineering

Synthetic feedback control using an RNAi-based gene-regulatory device

(2015) Ryan J Bloom et al.   Journal of Biological Engineering

High-Sensitivity Measurements of Multiple Kinase Activities in Live Single Cells

(2014) Sergi Regot et al.   CELL

A quantitative framework for the forward design of synthetic miRNA circuits

(2014) Ryan J Bloom et al.   NATURE METHODS

Synthetic control of mammalian-cell motility by engineering chemotaxis to an orthogonal bioinert chemical signal

(2014) J. S. Park et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A library of mammalian effector modules for synthetic morphology

(2014) Elise Cachat et al.   Journal of Biological Engineering

Synthetic mammalian transgene negative autoregulation

(2013) V. Shimoga et al.   Molecular Systems Biology

Targeted DNA demethylation and activation of endogenous genes using programmable TALE-TET1 fusion proteins

(2013) Morgan L Maeder et al.   NATURE BIOTECHNOLOGY

Genomic mining of prokaryotic repressors for orthogonal logic gates

(2013) Brynne C Stanton et al.   Nature Chemical Biology

A red/far-red light-responsive bi-stable toggle switch to control gene expression in mammalian cells

(2013) Konrad Müller et al.   NUCLEIC ACIDS RESEARCH

Genetically Encoded Sender–Receiver System in 3D Mammalian Cell Culture

(2013) Andreia Carvalho et al.   ACS Synthetic Biology

Systems approaches for synthetic biology: a pathway toward mammalian design

(2013) Rahul Rekhi et al.   Frontiers in Physiology

Synthetic memory circuits for tracking human cell fate

(2012) D. R. Burrill et al.   GENES & DEVELOPMENT

Synthetic two-way communication between mammalian cells

(2012) William Bacchus et al.   NATURE BIOTECHNOLOGY

A complex network of factors with overlapping affinities represses splicing through intronic elements

(2012) Yang Wang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

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

Control of protein signaling using a computationally designed GTPase/GEF orthogonal pair

(2012) G. T. Kapp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Optical Control of Protein Activity by Fluorescent Protein Domains

(2012) X. X. Zhou et al.   SCIENCE

Synthetic Signal Propagation Through Direct Cell-Cell Interaction

(2012) M. Matsuda et al.   Science Signaling

Tunable Signal Processing in Synthetic MAP Kinase Cascades

(2011) Ellen C. O'Shaughnessy et al.   CELL

Synthetic Reversal of Epigenetic Silencing

(2011) Karmella A. Haynes et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Synthetic incoherent feedforward circuits show adaptation to the amount of their genetic template

(2011) L. Bleris et al.   Molecular Systems Biology

Feedback Control of Protein Expression in Mammalian Cells by Tunable Synthetic Translational Inhibition

(2011) James A. Stapleton et al.   ACS Synthetic Biology

A robust system for production of minicircle DNA vectors

(2010) Mark A Kay et al.   NATURE BIOTECHNOLOGY

A synthetic low-frequency mammalian oscillator

(2010) Marcel Tigges et al.   NUCLEIC ACIDS RESEARCH

Functional selection and systematic analysis of intronic splicing elements identify active sequence motifs and associated splicing factors

(2010) Stephanie J. Culler et al.   NUCLEIC ACIDS RESEARCH

Tuning and controlling gene expression noise in synthetic gene networks

(2010) Kevin F. Murphy et al.   NUCLEIC ACIDS RESEARCH

Genetic control of mammalian T-cell proliferation with synthetic RNA regulatory systems

(2010) Y. Y. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A synthetic-natural hybrid oscillator in human cells

(2010) J. E. Toettcher et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reprogramming Cellular Behavior with RNA Controllers Responsive to Endogenous Proteins

(2010) S. J. Culler et al.   SCIENCE

Ligand-induced sequestering of branchpoint sequence allows conditional control of splicing

(2009) Dong-Suk Kim et al.   BMC MOLECULAR BIOLOGY

A tunable synthetic mammalian oscillator

(2009) Marcel Tigges et al.   NATURE

Intron length increases oscillatory periods of gene expression in animal cells

(2008) I. A. Swinburne et al.   GENES & DEVELOPMENT

Design principles of biochemical oscillators

(2008) Béla Novák et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Intronically encoded siRNAs improve dynamic range of mammalian gene regulation systems and toggle switch

(2008) D. Greber et al.   NUCLEIC ACIDS RESEARCH

Sequestering of the 3′ Splice Site in a Theophylline-Responsive Riboswitch Allows Ligand-Dependent Control of Alternative Splicing

(2008) Veronica Gusti et al.   OLIGONUCLEOTIDES

Feedback Loops Shape Cellular Signals in Space and Time

(2008) O. Brandman et al.   SCIENCE

Construction of an artificial intercellular communication network using the nitric oxide signaling elements in mammalian cells

(2007) Wei-Dong Wang et al.   EXPERIMENTAL CELL RESEARCH