Synthetic gene circuits : methods and protocols
著者
書誌事項
Synthetic gene circuits : methods and protocols
（Methods in molecular biology / John M. Walker, series editor, 2229）
Humana Press, c2021
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注記
Includes bibliographical references and index
内容説明・目次
内容説明
This volume provides clear and direct protocols to implement automated Design-Build-Test-Learn (DBTL) into synthetic biology research. Chapters detail techniques to model and simulate biological systems, redesign biological systems, setting up of an automated biolaboratory, step-by-step guide on how to perform computer aided design, RNA sequencing, microfluidics -using bacterial cell free extracts, live mammalian cells, computational and experimental procedures, metabolic burden, computational techniques to predict such burden from models, and how DNA parts can be engineered in mammalian cells to sense, and respond to, and intracellular signals in general. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Authoritative and cutting-edge, Synthetic Gene Circuits: Methods and Protocols aims to ensure successful results in the further study of this vital field.
目次
1. Qualitative Modeling, Analysis and Control of Synthetic Regulatory Circuits
Madalena Chaves and Hidde de Jong
2. Stochastic Differential Equations for Practical Simulation of Gene Circuits
Jesus Pico, Alejandro Vignoni, and Yadira Boada
3. Using Models To (Re-)Design Synthetic Circuits
Giselle McCallum and Laurent Potvin-Trottier
4. Automated bio-circuit design with SYNBADm
Irene Otero-Muras and Julio R. Banga
5. Setting up an Automated Biomanufacturing Laboratory
Marilene Pavan
6. Computer-aided Design and Pre-validation of Large Batches of DNA Assemblies Valentin Zulkower
7. Computer-aided Planning for the Verification of Large Batches of DNA Constructs Valentin Zulkower
8. Characterizing Genetic Parts and Devices using RNA Sequencing
Deepti Vipin, Zoya Ignatova, and Thomas E. Gorochowski
9. Steady-State Cell-Free Gene Expression with Microfluidic Chemostats
Nadanai Laohakunakorn, Barbora Lavickova, Zoe Swank, Julie Laurent, and Sebastian J. Maerkl
10. A Microfluidic/Microscopy-Based Platform for On-Chip Controlled Gene Expression in Mammalian Cells
Mahmoud Khazim, Elisa Pedone, Lorena Postiglione, Diego di Bernardo, and Lucia Marucci
11. Optimal Experimental Design for Systems and Synthetic Biology Using Amigo2
Eva Balsa-Canto, Lucia Bandiera, and Filippo Menolaschina
12. A Cyber-Physical Platform for Model Calibration
Lucia Bandiera, David Gomez Cabeza, Eva Balsa-Canto, and Filippo Menolascina
13. Prediction of cellular burden with host-circuit models
Evangelos-Marios Nikolados, Andrea Y. Weisse, and Diego A. Oyarzun
14. A Practical Step-by-Step Guide for Quantifying Retroactivity in Gene Networks
Andras Gyorgy
15. Engineering Sensors for Gene Expression Burden
Alice Boo and Francesca Ceroni
16. Engineering Protein-based Parts for Genetic Devices in Mammalian Cells
Giuliano Bonfa, Federica Cella, and Velia Siciliano
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