Programming Morphogenesis through Systems and Synthetic Biology.
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Patrick Cahan | Jeremy J Velazquez | Mo R Ebrahimkhani | Emily Su | P. Cahan | M. Ebrahimkhani | Jeremy J. Velazquez | Emily Y. Su | Jeremy Velazquez | Patrick Cahan
[1] Jamie A Davies,et al. A library of mammalian effector modules for synthetic morphology , 2014, Journal of biological engineering.
[2] R. Gamelli,et al. Genomic responses in mouse models poorly mimic human inflammatory diseases , 2013, Proceedings of the National Academy of Sciences.
[3] Jared E. Toettcher,et al. Light-based feedback for controlling intracellular signaling dynamics , 2011, Nature Methods.
[4] G. Church,et al. Cas9 gRNA engineering for genome editing, activation and repression , 2015, Nature Methods.
[5] Ingo Roeder,et al. Dissecting mechanisms of mouse embryonic stem cells heterogeneity through a model-based analysis of transcription factor dynamics , 2016, Journal of The Royal Society Interface.
[6] James J Collins,et al. DNA sense-and-respond protein modules for mammalian cells , 2015, Nature Methods.
[7] R. Maehr,et al. De Novo Formation of Insulin-Producing “Neo-β Cell Islets” from Intestinal Crypts , 2014, Cell reports.
[8] Kathy E. O’Neill,et al. An organized and functional thymus generated from FOXN1-reprogrammed fibroblasts , 2014, Nature Cell Biology.
[9] H. Binder,et al. Multilineage communication regulates human liver bud development from pluripotency , 2017, Nature.
[10] Carolina Wählby,et al. In situ sequencing for RNA analysis in preserved tissue and cells , 2013, Nature Methods.
[11] Eric H. Davidson,et al. A gene regulatory network controlling the embryonic specification of endoderm , 2011, Nature.
[12] A. Regev,et al. Spatial reconstruction of single-cell gene expression data , 2015 .
[13] Timur Zhiyentayev,et al. Single-cell in situ RNA profiling by sequential hybridization , 2014, Nature Methods.
[14] Hans Clevers,et al. Modeling Development and Disease with Organoids , 2016, Cell.
[15] Y. Benenson,et al. Synthetic Biology Platform for Sensing and Integrating Endogenous Transcriptional Inputs in Mammalian Cells , 2016, Cell reports.
[16] R. Weiss,et al. Multi-input Rnai-based Logic Circuit for Identification of Specific , 2022 .
[17] M. Eiraku,et al. Self-organizing optic-cup morphogenesis in three-dimensional culture , 2011, Neuroscience Research.
[18] Michael Kyba,et al. Generation of functional thyroid from embryonic stem cells , 2012, Nature.
[19] Siyu Zhu,et al. Systematic Reconstruction of Molecular Cascades Regulating GP Development Using Single-Cell RNA-Seq. , 2016, Cell reports.
[20] Jun Jia,et al. Human hepatocytes with drug metabolic function induced from fibroblasts by lineage reprogramming. , 2014, Cell stem cell.
[21] Luis Diambra,et al. Genetically Encoded Sender–Receiver System in 3D Mammalian Cell Culture , 2013, ACS synthetic biology.
[22] Sandy L. Klemm,et al. Single-Cell Expression Analyses during Cellular Reprogramming Reveal an Early Stochastic and a Late Hierarchic Phase , 2012, Cell.
[23] E. Davidson,et al. Modeling transcriptional regulatory networks. , 2002, BioEssays : news and reviews in molecular, cellular and developmental biology.
[24] Juergen A. Knoblich,et al. Organogenesis in a dish: Modeling development and disease using organoid technologies , 2014, Science.
[25] S. Bicciato,et al. Induction of Expandable Tissue-Specific Stem/Progenitor Cells through Transient Expression of YAP/TAZ , 2016, Cell stem cell.
[26] Wendell A Lim,et al. Complex transcriptional modulation with orthogonal and inducible dCas9 regulators , 2016, Nature Methods.
[27] Luigi Naldini,et al. Endogenous microRNA can be broadly exploited to regulate transgene expression according to tissue, lineage and differentiation state , 2007, Nature Biotechnology.
[28] Arthur D. Lander,et al. Feedback, Lineages and Self-Organizing Morphogenesis , 2016, PLoS Comput. Biol..
[29] O. Elemento,et al. Conversion of adult endothelium to immunocompetent haematopoietic stem cells , 2017, Nature.
[30] R. Lockshin,et al. Cell death in development: shaping the embryo , 2006, Histochemistry and Cell Biology.
[31] D C Ward,et al. Actin gene expression visualized in chicken muscle tissue culture by using in situ hybridization with a biotinated nucleotide analog. , 1982, Proceedings of the National Academy of Sciences of the United States of America.
[32] Ron Weiss,et al. Rapid neurogenesis through transcriptional activation in human stem cells , 2014, Molecular systems biology.
[33] Domitilla Del Vecchio,et al. A Blueprint for a Synthetic Genetic Feedback Controller to Reprogram Cell Fate. , 2017, Cell systems.
[34] Boyang Zhang,et al. Synergistic Engineering: Organoids Meet Organs-on-a-Chip. , 2017, Cell stem cell.
[35] James Sharpe,et al. Data-driven modelling of a gene regulatory network for cell fate decisions in the growing limb bud , 2015, Molecular systems biology.
[36] Shayn M. Peirce,et al. Multi-cell Agent-based Simulation of the Microvasculature to Study the Dynamics of Circulating Inflammatory Cell Trafficking , 2007, Annals of Biomedical Engineering.
[37] Pavithra Kumar,et al. Understanding development and stem cells using single cell-based analyses of gene expression , 2017, Development.
[38] T. Miyakawa,et al. Genomic responses in mouse models poorly mimic human inflammatory diseases , 2013 .
[39] Isaac B. Hilton,et al. Editing the epigenome: technologies for programmable transcription and epigenetic modulation , 2016, Nature Methods.
[40] A. Engelman,et al. Haematopoietic stem and progenitor cells from human pluripotent stem cells , 2017, Nature.
[41] Valerie Wilson,et al. A Gene Regulatory Network Balances Neural and Mesoderm Specification during Vertebrate Trunk Development , 2017, Developmental cell.
[42] Makiko Iwafuchi‐Doi,et al. Pioneer transcription factors in cell reprogramming , 2014, Genes & development.
[43] Benjamin Rhau,et al. Synthetic control of mammalian-cell motility by engineering chemotaxis to an orthogonal bioinert chemical signal , 2014, Proceedings of the National Academy of Sciences.
[44] Guillaume Salbreux,et al. Vertex models: from cell mechanics to tissue morphogenesis , 2017, Philosophical Transactions of the Royal Society B: Biological Sciences.
[45] J. Leonard,et al. FedExosomes: Engineering Therapeutic Biological Nanoparticles that Truly Deliver , 2013, Pharmaceuticals.
[46] Thomas B Knudsen,et al. Computational modeling and simulation of genital tubercle development. , 2016, Reproductive toxicology.
[47] L. Cai,et al. In Situ Transcription Profiling of Single Cells Reveals Spatial Organization of Cells in the Mouse Hippocampus , 2016, Neuron.
[48] S. Shvartsman,et al. Complex structures from patterned cell sheets , 2017, Philosophical Transactions of the Royal Society B: Biological Sciences.
[49] Timothy K Lu,et al. Synthetic analog and digital circuits for cellular computation and memory. , 2014, Current opinion in biotechnology.
[50] Roeland M. H. Merks,et al. Cell-Based Modeling , 2012 .
[51] Sonja Nowotschin,et al. Symmetry breaking, germ layer specification and axial organisation in aggregates of mouse embryonic stem cells , 2014, Development.
[52] S. Basu,et al. A synthetic multicellular system for programmed pattern formation , 2005, Nature.
[53] Jamie A Davies,et al. 2- and 3-dimensional synthetic large-scale de novo patterning by mammalian cells through phase separation , 2016, Scientific Reports.
[54] Anna Kicheva,et al. Creating to understand – developmental biology meets engineering in Paris , 2017, Development.
[55] Kelly A. Schwarz,et al. Modular Extracellular Sensor Architecture for Engineering Mammalian Cell-based Devices , 2014, ACS synthetic biology.
[56] Miles Miller,et al. Modular Design of Artificial Tissue Homeostasis: Robust Control through Synthetic Cellular Heterogeneity , 2012, PLoS Comput. Biol..
[57] George M. Church,et al. Highly Multiplexed Subcellular RNA Sequencing in Situ , 2014, Science.
[58] J. Marioni,et al. High-throughput spatial mapping of single-cell RNA-seq data to tissue of origin , 2015, Nature Biotechnology.
[59] Madeline A. Lancaster,et al. Human cerebral organoids recapitulate gene expression programs of fetal neocortex development , 2015, Proceedings of the National Academy of Sciences.
[60] I. Amit,et al. Single-cell spatial reconstruction reveals global division of labor in the mammalian liver , 2016, Nature.
[61] S. Digumarthy,et al. Isolation of rare circulating tumour cells in cancer patients by microchip technology , 2007, Nature.
[62] J Walpole,et al. Agent-based model of angiogenesis simulates capillary sprout initiation in multicellular networks. , 2015, Integrative biology : quantitative biosciences from nano to macro.
[63] Nick Barker,et al. Organoids as an in vitro model of human development and disease , 2016, Nature Cell Biology.
[64] Kun Zhang,et al. Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues , 2015, Nature Protocols.
[65] Martin Fussenegger,et al. A programmable synthetic lineage-control network that differentiates human IPSCs into glucose-sensitive insulin-secreting beta-like cells , 2016, Nature Communications.
[66] Y. Benenson. Biomolecular computing systems: principles, progress and potential , 2012, Nature Reviews Genetics.
[67] Cole Trapnell,et al. Defining cell types and states with single-cell genomics , 2015, Genome research.
[68] A. Martinez-Arias,et al. The hope and the hype of organoid research , 2017, Development.
[69] Scott A. Rifkin,et al. Imaging individual mRNA molecules using multiple singly labeled probes , 2008, Nature Methods.
[70] Fergus R. Cooper,et al. Mechanocellular models of epithelial morphogenesis , 2017, Philosophical Transactions of the Royal Society B: Biological Sciences.
[71] D. Ingber,et al. Microfluidic organs-on-chips , 2014, Nature Biotechnology.
[72] Himanshu Kaul,et al. Investigating biocomplexity through the agent-based paradigm , 2013, Briefings Bioinform..
[73] Carsten Peterson,et al. Simulating the Mammalian Blastocyst - Molecular and Mechanical Interactions Pattern the Embryo , 2011, PLoS Comput. Biol..
[74] J. Davies. Using synthetic biology to explore principles of development , 2017, Development.
[75] Neville E. Sanjana,et al. High-throughput functional genomics using CRISPR–Cas9 , 2015, Nature Reviews Genetics.
[76] A. Brivanlou,et al. Embryoids, organoids and gastruloids: new approaches to understanding embryogenesis , 2017, Development.
[77] Shinya Yamanaka,et al. Efficient Detection and Purification of Cell Populations Using Synthetic MicroRNA Switches. , 2015, Cell stem cell.
[78] J. Eberwine,et al. Analysis of gene expression in single live neurons. , 1992, Proceedings of the National Academy of Sciences of the United States of America.
[79] Markus Wieland,et al. Engineering of ribozyme-based riboswitches for mammalian cells. , 2012, Methods.
[80] Russell M. Gordley,et al. Engineering Customized Cell Sensing and Response Behaviors Using Synthetic Notch Receptors , 2016, Cell.
[81] Edward S Boyden,et al. Nanoscale Imaging of RNA with Expansion Microscopy , 2016, Nature Methods.
[82] Martin Fussenegger,et al. Synthetic two-way communication between mammalian cells , 2012, Nature Biotechnology.
[83] Rong Li,et al. Construction of an artificial intercellular communication network using the nitric oxide signaling elements in mammalian cells. , 2008, Experimental cell research.
[84] Martin Fussenegger,et al. Mammalian synthetic biology: engineering of sophisticated gene networks. , 2007, Journal of biotechnology.
[85] Catalin C. Barbacioru,et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell , 2010, Nature Protocols.
[86] R. Sachidanandam,et al. High-throughput assessment of microRNA activity and function using microRNA sensor and decoy libraries , 2012, Nature Methods.
[87] R. Weiss,et al. CRISPR transcriptional repression devices and layered circuits in mammalian cells , 2014, Nature Methods.
[88] Joshua N Leonard,et al. Multiplexing Engineered Receptors for Multiparametric Evaluation of Environmental Ligands. , 2017, ACS synthetic biology.
[89] Linda G. Griffith,et al. Genetically engineering self-organization of human pluripotent stem cells into a liver bud-like tissue using Gata6 , 2016, Nature Communications.
[90] Shaojie Zhang,et al. Multiplexed labeling of genomic loci with dCas9 and engineered sgRNAs using CRISPRainbow , 2016, Nature Biotechnology.
[91] John C. Marioni,et al. Identifying Cell Types from Spatially Referenced Single-Cell Expression Datasets , 2014, PLoS Comput. Biol..
[92] Xiaoqiang Guo,et al. Directing cellular information flow via CRISPR signal conductors , 2016, Nature Methods.
[93] Michael Wooldridge,et al. Programming Multi-Agent Systems in AgentSpeak using Jason (Wiley Series in Agent Technology) , 2007 .
[94] Christina D Smolke,et al. Reprogramming Cellular Behavior with RNA Controllers Responsive to Endogenous Proteins , 2010, Science.