From Designing the Molecules of Life to Designing Life: Future Applications Derived from Advances in DNA Technologies

Adaptive evolution of genomically recodedEscherichia coli

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

Engineering posttranslational proofreading to discriminate nonstandard amino acids

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

Rapid Sequential in Situ Multiplexing with DNA Exchange Imaging in Neuronal Cells and Tissues

(2017) Yu Wang et al.   NANO LETTERS

Expanding and reprogramming the genetic code

(2017) Jason W. Chin   NATURE

CRISPR–Cas encoding of a digital movie into the genomes of a population of living bacteria

(2017) Seth L. Shipman et al.   NATURE

Nanoscale imaging of clinical specimens using pathology-optimized expansion microscopy

(2017) Yongxin Zhao et al.   NATURE BIOTECHNOLOGY

Iterative expansion microscopy

(2017) Jae-Byum Chang et al.   NATURE METHODS

Using high-throughput barcode sequencing to efficiently map connectomes

(2017) Ian D. Peikon et al.   NUCLEIC ACIDS RESEARCH

Extending enzyme molecular recognition with an expanded amino acid alphabet

(2017) Claire L. Windle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bug mapping and fitness testing of chemically synthesized chromosome X

(2017) Yi Wu et al.   SCIENCE

3D organization of synthetic and scrambled chromosomes

(2017) Guillaume Mercy et al.   SCIENCE

Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome

(2017) Yue Shen et al.   SCIENCE

Engineering the ribosomal DNA in a megabase synthetic chromosome

(2017) Weimin Zhang et al.   SCIENCE

DNA Fountain enables a robust and efficient storage architecture

(2017) Yaniv Erlich et al.   SCIENCE

Design of a synthetic yeast genome

(2017) Sarah M. Richardson et al.   SCIENCE

Synthesis, debugging, and effects of synthetic chromosome consolidation: synVI and beyond

(2017) Leslie A. Mitchell et al.   SCIENCE

“Perfect” designer chromosome V and behavior of a ring derivative

(2017) Ze-Xiong Xie et al.   SCIENCE

DNA-barcoded labeling probes for highly multiplexed Exchange-PAINT imaging

(2017) Sarit S. Agasti et al.   Chemical Science

Oligolysine-based coating protects DNA nanostructures from low-salt denaturation and nuclease degradation

(2017) Nandhini Ponnuswamy et al.   Nature Communications

Drug delivery in overcoming the blood–brain barrier: role of nasal mucosal grafting

(2017) Carlotta Marianecci et al.   Drug Design Development and Therapy

Mapping a multiplexed zoo of mRNA expression

(2016) Harry M. T. Choi et al.   DEVELOPMENT

Single-molecule RNA detection at depth by hybridization chain reaction and tissue hydrogel embedding and clearing

(2016) Sheel Shah et al.   DEVELOPMENT

Evolution of DNA origami scaffolds

(2016) Arun Richard Chandrasekaran et al.   MATERIALS LETTERS

Deregulation of S-adenosylmethionine biosynthesis and regeneration improves methylation in the E. coli de novo vanillin biosynthesis pathway

(2016) Aditya M. Kunjapur et al.   Microbial Cell Factories

Design and Synthesis of Triangulated DNA Origami Trusses

(2016) Michael Matthies et al.   NANO LETTERS

Light-Triggered Release of Bioactive Molecules from DNA Nanostructures

(2016) Richie E. Kohman et al.   NANO LETTERS

Defining synonymous codon compression schemes by genome recoding

(2016) Kaihang Wang et al.   NATURE

Protein-retention expansion microscopy of cells and tissues labeled using standard fluorescent proteins and antibodies

(2016) Paul W Tillberg et al.   NATURE BIOTECHNOLOGY

A synthetic molecular system capable of mirror-image genetic replication and transcription

(2016) Zimou Wang et al.   Nature Chemistry

Dense transcript profiling in single cells by image correlation decoding

(2016) Ahmet F Coskun et al.   NATURE METHODS

Nanoscale imaging of RNA with expansion microscopy

(2016) Fei Chen et al.   NATURE METHODS

High-Throughput Mapping of Single-Neuron Projections by Sequencing of Barcoded RNA

(2016) Justus M. Kebschull et al.   NEURON

In Situ Transcription Profiling of Single Cells Reveals Spatial Organization of Cells in the Mouse Hippocampus

(2016) Sheel Shah et al.   NEURON

Heterotopic Mucosal Grafting Enables the Delivery of Therapeutic Neuropeptides Across the Blood Brain Barrier

(2016) Benjamin S. Bleier et al.   NEUROSURGERY

Emergent rules for codon choice elucidated by editing rare arginine codons inEscherichia coli

(2016) Michael G. Napolitano et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-performance multiplexed fluorescence in situ hybridization in culture and tissue with matrix imprinting and clearing

(2016) Jeffrey R. Moffitt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-throughput single-cell gene-expression profiling with multiplexed error-robust fluorescence in situ hybridization

(2016) Jeffrey R. Moffitt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Design, synthesis, and testing toward a 57-codon genome

(2016) N. Ostrov et al.   SCIENCE

Design and synthesis of a minimal bacterial genome

(2016) C. A. Hutchison et al.   SCIENCE

The Genome Project-Write

(2016) J. D. Boeke et al.   SCIENCE

Designer nanoscale DNA assemblies programmed from the top down

(2016) R. Veneziano et al.   SCIENCE

Rapid and Inexpensive Evaluation of Nonstandard Amino Acid Incorporation in Escherichia coli

(2016) Jordan W. Monk et al.   ACS Synthetic Biology

Genomic Recoding Broadly Obstructs the Propagation of Horizontally Transferred Genetic Elements

(2016) Natalie Jing Ma et al.   Cell Systems

Purification of Functionalized DNA Origami Nanostructures

(2015) Alan Shaw et al.   ACS Nano

Multiplexed single-cell in situ RNA analysis by reiterative hybridization

(2015) Lu Xiao et al.   Analytical Methods

Assembly and Purification of Enzyme-Functionalized DNA Origami Structures

(2015) Christopher Timm et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Robust Chemical Preservation of Digital Information on DNA in Silica with Error-Correcting Codes

(2015) Robert N. Grass et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Light sensitization of DNA nanostructures via incorporation of photo-cleavable spacers

(2015) Richie E. Kohman et al.   CHEMICAL COMMUNICATIONS

Advances and Applications of Single-Cell Sequencing Technologies

(2015) Yong Wang et al.   MOLECULAR CELL

Efficient Production of Single-Stranded Phage DNA as Scaffolds for DNA Origami

(2015) Benjamin Kick et al.   NANO LETTERS

DNA rendering of polyhedral meshes at the nanoscale

(2015) Erik Benson et al.   NATURE

Recoded organisms engineered to depend on synthetic amino acids

(2015) Alexis J. Rovner et al.   NATURE

Biocontainment of genetically modified organisms by synthetic protein design

(2015) Daniel J. Mandell et al.   NATURE

Complex wireframe DNA origami nanostructures with multi-arm junction vertices

(2015) Fei Zhang et al.   Nature Nanotechnology

Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues

(2015) Je Hyuk Lee et al.   Nature Protocols

Outwitting EF-Tu and the ribosome: translation with d-amino acids

(2015) John Achenbach et al.   NUCLEIC ACIDS RESEARCH

Spatially resolved, highly multiplexed RNA profiling in single cells

(2015) K. H. Chen et al.   SCIENCE

Genome-wide inactivation of porcine endogenous retroviruses (PERVs)

(2015) L. Yang et al.   SCIENCE

Expansion microscopy

(2015) F. Chen et al.   SCIENCE

Daunorubicin-Loaded DNA Origami Nanostructures Circumvent Drug-Resistance Mechanisms in a Leukemia Model

(2015) Patrick D. Halley et al.   Small

Designing logical codon reassignment – Expanding the chemistry in biology

(2015) Anaëlle Dumas et al.   Chemical Science

Bacterial Recombineering: Genome Engineering via Phage-Based Homologous Recombination

(2015) Gur Pines et al.   ACS Synthetic Biology

DNA Origami as an In Vivo Drug Delivery Vehicle for Cancer Therapy

(2014) Qian Zhang et al.   ACS Nano

Virus-Inspired Membrane Encapsulation of DNA Nanostructures To Achieve In Vivo Stability

(2014) Steven D. Perrault et al.   ACS Nano

Next-Generation in Situ Hybridization Chain Reaction: Higher Gain, Lower Cost, Greater Durability

(2014) Harry M. T. Choi et al.   ACS Nano

Facile and Scalable Preparation of Pure and Dense DNA Origami Solutions

(2014) Evi Stahl et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Expanding and Reprogramming the Genetic Code of Cells and Animals

(2014) Jason W. Chin   Annual Review of Biochemistry

Production of Site-Specific Antibody–Drug Conjugates Using Optimized Non-Natural Amino Acids in a Cell-Free Expression System

(2014) Erik S. Zimmerman et al.   BIOCONJUGATE CHEMISTRY

Exploring the genesis and functions of Human Accelerated Regions sheds light on their role in human evolution

(2014) Melissa J Hubisz et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Biogenesis ofd-amino acid containing peptides/proteins: where, when and how?

(2014) Céline Ollivaux et al.   JOURNAL OF PEPTIDE SCIENCE

Synthesis and Accumulation of Aromatic Aldehydes in an Engineered Strain of Escherichia coli

(2014) Aditya M. Kunjapur et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Toward aldehyde and alkane production by removing aldehyde reductase activity in Escherichia coli

(2014) Gabriel M. Rodriguez et al.   METABOLIC ENGINEERING

A semi-synthetic organism with an expanded genetic alphabet

(2014) Denis A. Malyshev et al.   NATURE

Multiplexed 3D cellular super-resolution imaging with DNA-PAINT and Exchange-PAINT

(2014) Ralf Jungmann et al.   NATURE METHODS

Single-cell in situ RNA profiling by sequential hybridization

(2014) Eric Lubeck et al.   NATURE METHODS

Spatially resolved transcriptomics and beyond

(2014) Nicola Crosetto et al.   NATURE REVIEWS GENETICS

Total Synthesis of a Functional Designer Eukaryotic Chromosome

(2014) N. Annaluru et al.   SCIENCE

Highly Multiplexed Subcellular RNA Sequencing in Situ

(2014) J. H. Lee et al.   SCIENCE

Evolution of Alu Elements toward Enhancers

(2014) Ming Su et al.   Cell Reports

Self-Assembly of DNA Origami and Single-Stranded Tile Structures at Room Temperature

(2013) Zhao Zhang et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Recruiting Cytotoxic T Cells to Folate-Receptor-Positive Cancer Cells

(2013) Sumith A. Kularatne et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Reevaluation of the d-Amino Acid Compatibility with the Elongation Event in Translation

(2013) Tomoshige Fujino et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Synthesis of DNA/RNA and Their Analogs via Phosphoramidite and H-Phosphonate Chemistries

(2013) Subhadeep Roy et al.   MOLECULES

Towards practical, high-capacity, low-maintenance information storage in synthesized DNA

(2013) Nick Goldman et al.   NATURE

In situ sequencing for RNA analysis in preserved tissue and cells

(2013) Rongqin Ke et al.   NATURE METHODS

Permeabilization of the Blood-Brain Barrier via Mucosal Engrafting: Implications for Drug Delivery to the Brain

(2013) Benjamin S. Bleier et al.   PLoS One

Composability of regulatory sequences controlling transcription and translation inEscherichia coli

(2013) Sriram Kosuri et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA Gridiron Nanostructures Based on Four-Arm Junctions

(2013) D. Han et al.   SCIENCE

Genomically Recoded Organisms Expand Biological Functions

(2013) M. J. Lajoie et al.   SCIENCE

DNA Origami Delivery System for Cancer Therapy with Tunable Release Properties

(2012) Yong-Xing Zhao et al.   ACS Nano

Multiplexed In Situ Immunofluorescence Using Dynamic DNA Complexes

(2012) Ryan M. Schweller et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

In Situ Probing of Newly Synthesized Peptidoglycan in Live Bacteria with FluorescentD-Amino Acids

(2012) Erkin Kuru et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

The N-End Rule Pathway

(2012) Takafumi Tasaki et al.   Annual Review of Biochemistry

PEGylated poly(2-(dimethylamino) ethyl methacrylate)/DNA polyplex micelles decorated with phage-displayed TGN peptide for brain-targeted gene delivery

(2012) Yong Qian et al.   BIOMATERIALS

DNA Origami as a Carrier for Circumvention of Drug Resistance

(2012) Qiao Jiang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Single-cell systems biology by super-resolution imaging and combinatorial labeling

(2012) Eric Lubeck et al.   NATURE METHODS

Purification of DNA-origami nanostructures by rate-zonal centrifugation

(2012) Chenxiang Lin et al.   NUCLEIC ACIDS RESEARCH

Performance Analysis of Orthogonal Pairs Designed for an Expanded Eukaryotic Genetic Code

(2012) Sebastian Nehring et al.   PLoS One

Refactoring the nitrogen fixation gene cluster from Klebsiella oxytoca

(2012) K. Temme et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multicellularity Driven by Bacteria

(2012) J. Carpenter   SCIENCE

Translation Elongation Factor EF-P Alleviates Ribosome Stalling at Polyproline Stretches

(2012) S. Ude et al.   SCIENCE

Rapid Folding of DNA into Nanoscale Shapes at Constant Temperature

(2012) J.-P. J. Sobczak et al.   SCIENCE

Next-Generation Digital Information Storage in DNA

(2012) G. M. Church et al.   SCIENCE

Three-Dimensional Structures Self-Assembled from DNA Bricks

(2012) Y. Ke et al.   SCIENCE

A Logic-Gated Nanorobot for Targeted Transport of Molecular Payloads

(2012) S. M. Douglas et al.   SCIENCE

Magnesium-free self-assembly of multi-layer DNA objects

(2012) Thomas G. Martin et al.   Nature Communications

Modern methods for delivery of drugs across the blood–brain barrier

(2011) Yan Chen et al.   ADVANCED DRUG DELIVERY REVIEWS

The brain targeting mechanism of Angiopep-conjugated poly(ethylene glycol)-co-poly(ɛ-caprolactone) nanoparticles

(2011) Hongliang Xin et al.   BIOMATERIALS

Multilayer DNA Origami Packed on Hexagonal and Hybrid Lattices

(2011) Yonggang Ke et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Initial impact of the sequencing of the human genome

(2011) Eric S. Lander   NATURE

A primer to scaffolded DNA origami

(2011) Carlos Ernesto Castro et al.   NATURE METHODS

Recovery of intact DNA nanostructures after agarose gel–based separation

(2011) Gaëtan Bellot et al.   NATURE METHODS

Quantitative prediction of 3D solution shape and flexibility of nucleic acid nanostructures

(2011) Do-Nyun Kim et al.   NUCLEIC ACIDS RESEARCH

Importance of single molecular determinants in the fidelity of expanded genetic codes

(2011) A. K. Antonczak et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Optimized clinical performance of growth hormone with an expanded genetic code

(2011) H. Cho et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Precise Manipulation of Chromosomes in Vivo Enables Genome-Wide Codon Replacement

(2011) Farren J. Isaacs et al.   SCIENCE

DNA Origami with Complex Curvatures in Three-Dimensional Space

(2011) D. Han et al.   SCIENCE

Nanomaterials Based on DNA

(2010) Nadrian C. Seeman   Annual Review of Biochemistry

A leptin derived 30-amino-acid peptide modified pegylated poly-l-lysine dendrigraft for brain targeted gene delivery

(2010) Yang Liu et al.   BIOMATERIALS

Comparison of five different targeting ligands to enhance accumulation of liposomes into the brain

(2010) Inge van Rooy et al.   JOURNAL OF CONTROLLED RELEASE

Improving a Natural Enzyme Activity through Incorporation of Unnatural Amino Acids

(2010) Isaac N. Ugwumba et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Programmable in situ amplification for multiplexed imaging of mRNA expression

(2010) Harry M T Choi et al.   NATURE BIOTECHNOLOGY

Folding and cutting DNA into reconfigurable topological nanostructures

(2010) Dongran Han et al.   Nature Nanotechnology

Nanoparticle-Mediated Brain-Specific Drug Delivery, Imaging, and Diagnosis

(2010) Hu Yang   PHARMACEUTICAL RESEARCH

Creation of a Bacterial Cell Controlled by a Chemically Synthesized Genome

(2010) D. G. Gibson et al.   SCIENCE

Mutagenesis and Evolution of Sulfated Antibodies Using an Expanded Genetic Code

(2009) Chang C. Liu et al.   BIOCHEMISTRY

Brain-targeting gene delivery and cellular internalization mechanisms for modified rabies virus glycoprotein RVG29 nanoparticles

(2009) Yang Liu et al.   BIOMATERIALS

Design and construction of a box-shaped 3D-DNA origami

(2009) Akinori Kuzuya et al.   CHEMICAL COMMUNICATIONS

Ambush hypothesis revisited: Evidences for phylogenetic trends

(2009) Tiratha Raj Singh et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

An Enhanced System for Unnatural Amino Acid Mutagenesis in E. coli

(2009) Travis S. Young et al.   JOURNAL OF MOLECULAR BIOLOGY

Multilayer DNA Origami Packed on a Square Lattice

(2009) Yonggang Ke et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Scaffolded DNA Origami of a DNA Tetrahedron Molecular Container

(2009) Yonggang Ke et al.   NANO LETTERS

Self-assembly of DNA into nanoscale three-dimensional shapes

(2009) Shawn M. Douglas et al.   NATURE

Self-assembly of a nanoscale DNA box with a controllable lid

(2009) Ebbe S. Andersen et al.   NATURE

Programming cells by multiplex genome engineering and accelerated evolution

(2009) Harris H. Wang et al.   NATURE

Virus stalls Genzyme plant

(2009) Victor Bethencourt   NATURE BIOTECHNOLOGY

Rapid prototyping of 3D DNA-origami shapes with caDNAno

(2009) Shawn M. Douglas et al.   NUCLEIC ACIDS RESEARCH

Folding DNA into Twisted and Curved Nanoscale Shapes

(2009) H. Dietz et al.   SCIENCE

Involvement of the low-density lipoprotein receptor-related protein in the transcytosis of the brain delivery vector Angiopep-2

(2008) Michel Demeule et al.   JOURNAL OF NEUROCHEMISTRY

Transplantation of a tyrosine editing domain into a tyrosyl-tRNA synthetase variant enhances its specificity for a tyrosine analog

(2008) K. Oki et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Complete Chemical Synthesis, Assembly, and Cloning of a Mycoplasma genitalium Genome

(2008) D. G. Gibson et al.   SCIENCE