Novel synthetic biology approaches for developmental systems

Nanobody-mediated control of gene expression and epigenetic memory

(2021) Mike V. Van et al.   Nature Communications

Epigenetic silencing directs expression heterogeneity of stably integrated multi-transcript unit genetic circuits

(2021) Jan Zimak et al.   Scientific Reports

The COMET toolkit for composing customizable genetic programs in mammalian cells

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

Optogenetic Rescue of a Patterning Mutant

(2020) Heath E. Johnson et al.   CURRENT BIOLOGY

Synthetic Developmental Biology: Understanding Through Reconstitution

(2020) Gavin Schlissel et al.   Annual Review of Cell and Developmental Biology

Morphogenesis: Guiding Embryonic Development with Light

(2020) Stefano De Renzis   CURRENT BIOLOGY

Using optogenetics to tackle systems-level questions of multicellular morphogenesis

(2020) Jonas Hartmann et al.   CURRENT OPINION IN CELL BIOLOGY

Inducible Stem-Cell-Derived Embryos Capture Mouse Morphogenetic Events In Vitro

(2020) Gianluca Amadei et al.   DEVELOPMENTAL CELL

A comprehensive library of human transcription factors for cell fate engineering

(2020) Alex H. M. Ng et al.   NATURE BIOTECHNOLOGY

Gene Regulatory Network Analysis and Engineering Directs Development and Vascularization of Multilineage Human Liver Organoids

(2020) Jeremy J. Velazquez et al.   Cell Systems

It’s Not a Game: Accurate Representation with Toy Models

(2019) James Nguyen   BRITISH JOURNAL FOR THE PHILOSOPHY OF SCIENCE

Self-organization and symmetry breaking in intestinal organoid development

(2019) Denise Serra et al.   NATURE

Specification of positional identity in forebrain organoids

(2019) Gustav Y. Cederquist et al.   NATURE BIOTECHNOLOGY

Engineering Stem Cell Self-organization to Build Better Organoids

(2019) Jonathan A. Brassard et al.   Cell Stem Cell

Organoids by design

(2019) Takanori Takebe et al.   SCIENCE

Human Organoids: Tools for Understanding Biology and Treating Diseases

(2019) Frans Schutgens et al.   Annual Review of Pathology-Mechanisms of Disease

From synthetic biology to human therapy: engineered mammalian cells

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

Generation of Blastocyst-like Structures from Mouse Embryonic and Adult Cell Cultures

(2019) Ronghui Li et al.   CELL

Synthetic development: building mammalian multicellular structures with artificial genetic programs

(2019) Marco Santorelli et al.   CURRENT OPINION IN BIOTECHNOLOGY

Synthetic developmental biology: build and control multicellular systems

(2019) Mo R Ebrahimkhani et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Principles and applications of optogenetics in developmental biology

(2019) Daniel Krueger et al.   DEVELOPMENT

Engineering of human brain organoids with a functional vascular-like system

(2019) Bilal Cakir et al.   NATURE METHODS

Organoid and Assembloid Technologies for Investigating Cellular Crosstalk in Human Brain Development and Disease

(2019) Rebecca M. Marton et al.   TRENDS IN CELL BIOLOGY

Inducible Forward Programming of Human Pluripotent Stem Cells to Hemato-endothelial Progenitor Cells with Hematopoietic Progenitor Potential

(2019) Lucas Lange et al.   Stem Cell Reports

A Synthetic Bacterial Cell-Cell Adhesion Toolbox for Programming Multicellular Morphologies and Patterns

(2018) David S. Glass et al.   CELL

Developmental Biology: Morphogen in a Dish

(2018) Kristina S. Stapornwongkul et al.   CURRENT BIOLOGY

Illuminating developmental biology with cellular optogenetics

(2018) Heath E Johnson et al.   CURRENT OPINION IN BIOTECHNOLOGY

A quantitative model of developmental RTK signaling

(2018) Yogesh Goyal et al.   DEVELOPMENTAL BIOLOGY

Instructions for Assembling the Early Mammalian Embryo

(2018) Melanie D. White et al.   DEVELOPMENTAL CELL

Blastocyst-like structures generated solely from stem cells

(2018) Nicolas C. Rivron et al.   NATURE

Self-assembly of embryonic and two extra-embryonic stem cell types into gastrulating embryo-like structures

(2018) Berna Sozen et al.   NATURE CELL BIOLOGY

Morphogen gradient reconstitution reveals Hedgehog pathway design principles

(2018) Pulin Li et al.   SCIENCE

Programming Morphogenesis through Systems and Synthetic Biology

(2018) Jeremy J. Velazquez et al.   TRENDS IN BIOTECHNOLOGY

Guided morphogenesis through optogenetic activation of Rho signalling during early Drosophila embryogenesis

(2018) Emiliano Izquierdo et al.   Nature Communications

Silencing of transgene expression in mammalian cells by DNA methylation and histone modifications in gene therapy perspective

(2018) Suleiman Yusuf Alhaji et al.   Biotechnology & Genetic Engineering Reviews

Engineering Epigenetic Regulation Using Synthetic Read-Write Modules

(2018) Minhee Park et al.   CELL

Synthetic mammalian pattern formation driven by differential diffusivity of Nodal and Lefty

(2018) Ryoji Sekine et al.   Nature Communications

Illuminating developmental biology through photochemistry

(2017) Lukasz Kowalik et al.   Nature Chemical Biology

Talk about toy models

(2017) Joshua Luczak   STUDIES IN HISTORY AND PHILOSOPHY OF MODERN PHYSICS

A synthetic planar cell polarity system reveals localized feedback on Fat4-Ds1 complexes

(2017) Olga Loza et al.   eLife

The Heidelberg Screen for Pattern Mutants of Drosophila: A Personal Account

(2016) Eric Wieschaus et al.   Annual Review of Cell and Developmental Biology

Precision Tumor Recognition by T Cells With Combinatorial Antigen-Sensing Circuits

(2016) Kole T. Roybal et al.   CELL

Engineering Customized Cell Sensing and Response Behaviors Using Synthetic Notch Receptors

(2016) Leonardo Morsut et al.   CELL

Modeling Development and Disease with Organoids

(2016) Hans Clevers   CELL

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

(2016) Kole T. Roybal et al.   CELL

Top-down models in biology: explanation and control of complex living systems above the molecular level

(2016) Giovanni Pezzulo et al.   Journal of the Royal Society Interface

A decade of transcription factor-mediated reprogramming to pluripotency

(2016) Kazutoshi Takahashi et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Synthetic transitions: towards a new synthesis

(2016) Ricard Solé   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

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

2- and 3-dimensional synthetic large-scale de novo patterning by mammalian cells through phase separation

(2016) Elise Cachat et al.   Scientific Reports

Pioneer Transcription Factors Target Partial DNA Motifs on Nucleosomes to Initiate Reprogramming

(2015) Abdenour Soufi et al.   CELL

Morphogen rules: design principles of gradient-mediated embryo patterning

(2015) J. Briscoe et al.   DEVELOPMENT

An Optogenetic Method to Modulate Cell Contractility during Tissue Morphogenesis

(2015) Giorgia Guglielmi et al.   DEVELOPMENTAL CELL

Induction of hematopoietic and endothelial cell program orchestrated by ETS transcription factor ER71/ETV2

(2015) F. Liu et al.   EMBO REPORTS

Synthetic lateral inhibition governs cell-type bifurcation with robust ratios

(2015) Mitsuhiro Matsuda et al.   Nature Communications

Rapid neurogenesis through transcriptional activation in human stem cells

(2014) V. Busskamp et al.   Molecular Systems Biology

A brief history of synthetic biology

(2014) D. Ewen Cameron et al.   NATURE REVIEWS MICROBIOLOGY

Lattice light-sheet microscopy: Imaging molecules to embryos at high spatiotemporal resolution

(2014) Bi-Chang Chen et al.   SCIENCE

Direct induction of haematoendothelial programs in human pluripotent stem cells by transcriptional regulators

(2014) Irina Elcheva et al.   Nature Communications

Next-Generation Regenerative Medicine: Organogenesis from Stem Cells in 3D Culture

(2013) Yoshiki Sasai   Cell Stem Cell

Rapid Single-Step Induction of Functional Neurons from Human Pluripotent Stem Cells

(2013) Yingsha Zhang et al.   NEURON

Transdifferentiation of Fast Skeletal Muscle Into Functional Endothelium in Vivo by Transcription Factor Etv2

(2013) Matthew B. Veldman et al.   PLOS BIOLOGY

Synthetic Signal Propagation Through Direct Cell-Cell Interaction

(2012) M. Matsuda et al.   Science Signaling

Integrating levels of complexity: a trend in developmental biology

(2011) Irinka Castanon et al.   CURRENT OPINION IN CELL BIOLOGY

Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination

(2011) Thomas A Planchon et al.   NATURE METHODS

Synthetic Strategies for Studying Embryonic Development

(2010) Xiaohu Ouyang et al.   CHEMISTRY & BIOLOGY

The promise of optogenetics in cell biology: interrogating molecular circuits in space and time

(2010) Jared E Toettcher et al.   NATURE METHODS

Notch signaling specifies prosensory domains via lateral induction in the developing mammalian inner ear

(2010) B. H. Hartman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Spemann’s organizer and the self-regulation of embryonic fields

(2009) E.M. De Robertis   MECHANISMS OF DEVELOPMENT

Chemical technologies for probing embryonic development

(2008) Ilya A. Shestopalov et al.   CHEMICAL SOCIETY REVIEWS