The Role of Protein Engineering in Biomedical Applications of Mammalian Synthetic Biology

De novo design of potent and selective mimics of IL-2 and IL-15

(2019) Daniel-Adriano Silva et al.   NATURE

Why geneticists stole cancer research even though cancer is primarily a signaling disease

(2019) Michael B. Yaffe   Science Signaling

A chemical approach for global protein knockdown from mice to non-human primates

(2019) Xiuyun Sun et al.   Cell Discovery

Ligand-induced conformational switch in an artificial bidomain protein scaffold

(2019) Corentin Léger et al.   Scientific Reports

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

Targeted Protein Degradation through Cytosolic Delivery of Monobody Binders Using Bacterial Toxins

(2019) Nadine Eliane Schmit et al.   ACS Chemical Biology

Time-resolved protein activation by proximal decaging in living systems

(2019) Jie Wang et al.   NATURE

Rewiring bacterial two-component systems by modular DNA-binding domain swapping

(2019) Sebastian R. Schmidl et al.   Nature Chemical Biology

Engineered bacteriophages for treatment of a patient with a disseminated drug-resistant Mycobacterium abscessus

(2019) Rebekah M. Dedrick et al.   NATURE MEDICINE

Machine learning-assisted directed protein evolution with combinatorial libraries

(2019) Zachary Wu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Complex signal processing in synthetic gene circuits using cooperative regulatory assemblies

(2019) Caleb J. Bashor et al.   SCIENCE

A compact synthetic pathway rewires cancer signaling to therapeutic effector release

(2019) Hokyung K. Chung et al.   SCIENCE

De novo design of tunable, pH-driven conformational changes

(2019) Scott E. Boyken et al.   SCIENCE

End-to-End Differentiable Learning of Protein Structure

(2019) Mohammed AlQuraishi   Cell Systems

Machine-learning-guided directed evolution for protein engineering

(2019) Kevin K. Yang et al.   NATURE METHODS

Synthetic TRuC receptors engaging the complete T cell receptor for potent anti-tumor response

(2019) Patrick A. Baeuerle et al.   Nature Communications

A modular degron library for synthetic circuits in mammalian cells

(2019) Hélène Chassin et al.   Nature Communications

From synthetic biology to human therapy: engineered mammalian cells

(2019) Leo Scheller et al.   CURRENT OPINION IN BIOTECHNOLOGY

Systematic Evaluation of CRISPRa and CRISPRi Modalities Enables Development of a Multiplexed, Orthogonal Gene Activation and Repression System

(2019) Andrea Martella et al.   ACS Synthetic Biology

Genetic circuitry for personalized human cell therapy

(2019) Fabian Tolle et al.   CURRENT OPINION IN BIOTECHNOLOGY

Universal Chimeric Antigen Receptors for Multiplexed and Logical Control of T Cell Responses

(2018) Jang Hwan Cho et al.   CELL

Immunomimetic Designer Cells Protect Mice from MRSA Infection

(2018) Ying Liu et al.   CELL

Human iPSC-Derived Natural Killer Cells Engineered with Chimeric Antigen Receptors Enhance Anti-tumor Activity

(2018) Ye Li et al.   Cell Stem Cell

Directed Evolution of a Picomolar Affinity High Specificity Antibody Targeting Phosphorylated Tau

(2018) Dan Li et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Generalized extracellular molecule sensor platform for programming cellular behavior

(2018) Leo Scheller et al.   Nature Chemical Biology

An enhanced CRISPR repressor for targeted mammalian gene regulation

(2018) Nan Cher Yeo et al.   NATURE METHODS

StaPLs: versatile genetically encoded modules for engineering drug-inducible proteins

(2018) Conor L. Jacobs et al.   NATURE METHODS

The challenges facing synthetic biology in eukaryotes

(2018) Francesca Ceroni et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Computational design of orthogonal membrane receptor-effector switches for rewiring signaling pathways

(2018) M. Young et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Synthetic biology-based cellular biomedical tattoo for detection of hypercalcemia associated with cancer

(2018) Aizhan Tastanova et al.   Science Translational Medicine

Caffeine-inducible gene switches controlling experimental diabetes

(2018) Daniel Bojar et al.   Nature Communications

Designer exosomes produced by implanted cells intracerebrally deliver therapeutic cargo for Parkinson’s disease treatment

(2018) Ryosuke Kojima et al.   Nature Communications

A cell-penetrating artificial metalloenzyme regulates a gene switch in a designer mammalian cell

(2018) Yasunori Okamoto et al.   Nature Communications

Engineering Whole Mammalian Cells for Target-Cell-Specific Invasion/Fusion

(2018) Ryosuke Kojima et al.   Advanced Science

Programming mammalian gene expression with the antibiotic simocyclinone D8 and the flavonoid luteolin

(2018) Daniel Bojar et al.   AICHE JOURNAL

Programmable protein circuits in living cells

(2018) Xiaojing J. Gao et al.   SCIENCE

De novo coiled-coil peptides as scaffolds for disrupting protein–protein interactions

(2018) Jordan M. Fletcher et al.   Chemical Science

Design of metalloproteins and novel protein folds using variational autoencoders

(2018) Joe G. Greener et al.   Scientific Reports

Dual-controlled optogenetic system for the rapid down-regulation of protein levels in mammalian cells

(2018) Julia Baaske et al.   Scientific Reports

Programmable design of orthogonal protein heterodimers

(2018) Zibo Chen et al.   NATURE

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

(2018) Tina Fink et al.   Nature Chemical Biology

Engineered anti-CRISPR proteins for optogenetic control of CRISPR–Cas9

(2018) Felix Bubeck et al.   NATURE METHODS

Switchable control over in vivo CAR T expansion, B cell depletion, and induction of memory

(2018) Sophie Viaud et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Engineering allosteric regulation in protein kinases

(2018) David Pincus et al.   Science Signaling

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

Optogenetic Medicine: Synthetic Therapeutic Solutions Precision-Guided by Light

(2018) Haifeng Ye et al.   Cold Spring Harbor Perspectives in Medicine

Two-Dimensional Regulation of CAR-T Therapy with Orthogonal Switches

(2018) MyLinh T. Duong et al.   Molecular Therapy-Oncolytics

Purity by design: Reducing impurities in bioproduction by stimulus-controlled global translational downregulation of non-product proteins

(2018) Daniel Bojar et al.   METABOLIC ENGINEERING

Generation of glucose-sensitive insulin-secreting beta-like cells from human embryonic stem cells by incorporating a synthetic lineage-control network

(2017) Pratik Saxena et al.   JOURNAL OF BIOTECHNOLOGY

Improving Chimeric Antigen Receptor-Modified T Cell Function by Reversing the Immunosuppressive Tumor Microenvironment of Pancreatic Cancer

(2017) Somala Mohammed et al.   MOLECULAR THERAPY

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

(2017) Benjamin H Weinberg et al.   NATURE BIOTECHNOLOGY

Nonimmune cells equipped with T-cell-receptor-like signaling for cancer cell ablation

(2017) Ryosuke Kojima et al.   Nature Chemical Biology

Programmable full-adder computations in communicating three-dimensional cell cultures

(2017) David Ausländer et al.   NATURE METHODS

The directed evolution of ligand specificity in a GPCR and the unequal contributions of efficacy and affinity

(2017) Raphaël B. Di Roberto et al.   Scientific Reports

Engineering Customized Cell Sensing and Response Behaviors Using Synthetic Notch Receptors

(2016) Leonardo Morsut et al.   CELL

Engineering T Cells with Customized Therapeutic Response Programs Using Synthetic Notch Receptors

(2016) Kole T. Roybal et al.   CELL

Overexpression of YY1 increases the protein production in mammalian cells

(2016) Aizhan Tastanova et al.   JOURNAL OF BIOTECHNOLOGY

Mammalian synthetic biology for studying the cell

(2016) Melina Mathur et al.   JOURNAL OF CELL BIOLOGY

Rewiring human cellular input–output using modular extracellular sensors

(2016) Kelly A Schwarz et al.   Nature Chemical Biology

Comparison of Cas9 activators in multiple species

(2016) Alejandro Chavez et al.   NATURE METHODS

Engineering a ribozyme cleavage-induced split fluorescent aptamer complementation assay

(2016) Simon Ausländer et al.   NUCLEIC ACIDS RESEARCH

Synthetic gene network restoring endogenous pituitary–thyroid feedback control in experimental Graves’ disease

(2016) Pratik Saxena et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

 -cell-mimetic designer cells provide closed-loop glycemic control

(2016) M. Xie et al.   SCIENCE

Directed evolution of cytochrome c for carbon–silicon bond formation: Bringing silicon to life

(2016) S. B. Jennifer Kan et al.   SCIENCE

Building Spatial Synthetic Biology with Compartments, Scaffolds, and Communities

(2016) Jessica K. Polka et al.   Cold Spring Harbor Perspectives in Biology

A programmable synthetic lineage-control network that differentiates human IPSCs into glucose-sensitive insulin-secreting beta-like cells

(2016) Pratik Saxena et al.   Nature Communications

CAR models: next-generation CAR modifications for enhanced T-cell function

(2016) Daniel Abate-Daga et al.   Molecular Therapy-Oncolytics

Toxicity and management in CAR T-cell therapy

(2016) Challice L Bonifant et al.   Molecular Therapy-Oncolytics

A light-inducible CRISPR-Cas9 system for control of endogenous gene activation

(2015) Lauren R Polstein et al.   Nature Chemical Biology

Continuous directed evolution of DNA-binding proteins to improve TALEN specificity

(2015) Basil P Hubbard et al.   NATURE METHODS

Engineering an allosteric transcription factor to respond to new ligands

(2015) Noah D Taylor et al.   NATURE METHODS

T cell engineering as therapy for cancer and HIV: our synthetic future

(2015) Carl H. June et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Remote control of therapeutic T cells through a small molecule-gated chimeric receptor

(2015) C.-Y. Wu et al.   SCIENCE

A Synthetic Multifunctional Mammalian pH Sensor and CO2 Transgene-Control Device

(2014) David Ausländer et al.   MOLECULAR CELL

Impact of scaffold rigidity on the design and evolution of an artificial Diels-Alderase

(2014) N. Preiswerk et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CHO cell engineering to prevent polypeptide aggregation and improve therapeutic protein secretion

(2013) Valérie Le Fourn et al.   METABOLIC ENGINEERING

Chimeric Antigen Receptor–Modified T Cells for Acute Lymphoid Leukemia

(2013) Stephan A. Grupp et al.   NEW ENGLAND JOURNAL OF MEDICINE

A De Novo Protein Binding Pair By Computational Design and Directed Evolution

(2011) John Karanicolas et al.   MOLECULAR CELL

The N-end rule pathway and regulation by proteolysis

(2011) Alexander Varshavsky   PROTEIN SCIENCE

Controlling transgene expression in subcutaneous implants using a skin lotion containing the apple metabolite phloretin

(2009) M. Gitzinger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA