Synthetic biology is a field dedicated to applying engineering principles to biology to build artificial biological systems. This repository aims to provide a useful resource for those wish to work in the field and those who are already working in it. The books and papers are categorized within subfields.
Feel free to add any resources which you find useful! If you would like to do so, submit a pull request or contact me @TivadarDanka.
- Michael Krogh Jensen, Jay D Keasling (editors), Synthetic Metabolic Pathways - Methods and Protocols (Springer Protocols) (2018)
- George Stephanopoulos, Aristos Aristidou, Jens Nielsen, Metabolic Engineering: Principles and Methodologies (Academic Press) (1998)
- Huimin Zhao, An-Ping Zeng (editors), Synthetic Biology - Metabolic Engineering (Springer Advances in Biochemical Engineering/Biotechnology) (2018)
- Geoff Baldwin et al, Synthetic Biology - A Primer (Imperial College Press) (2016)
- Natalie Kuldell, Rachel Bernstein, Karen Ingram, Kathryn M Hart, BioBuilder - Synthetic Biology in the Lab (O'Reilly) (2015)
- Huimin Zhao (editor), Synthetic Biology - Tools and Applications (Academic Press) (2013)
- Uri Alon, An Introduction to Systems Biology: Design Principles of Biological Circuits (Chapman & Hall/CRC Mathematical and Computational Biology) (2006)
- Andreas Kremling, Systems Biology: Mathematical Modeling and Model Analysis (Chapman & Hall/CRC Mathematical and Computational Biology) (2013)
- Olivier Borkowski, Carlos Bricio, Michela Murgiano, Brooke Rothschild-Mancinelli, Guy-Bart Stan & Tom Ellis, Cell-free prediction of protein expression costs for growing cells. Nature Communications (2018)
- Neil Dalchau, Gregory Szép, Rosa Hernansaiz-Ballesteros, Chris P. Barnes, Luca Cardelli, Andrew Phillips, Attila Csikász-Nagy, Computing with biological switches and clocks, Natural Computing (2018)
- Denis Shepelin, Anne Sofie Lærke Hansen, Rebecca Lennen, Hao Luo, Markus J. Herrgård, Selecting the Best: Evolutionary Engineering of Chemical Production in Microbes, Genes (2018)
- Tom Ellis, Tom Adieac, Geoff S. Baldwin, DNA assembly for synthetic biology: from parts to pathways and beyond, Integrative Biology (2011)
- Jennifer A. N. Brophy, Christopher A. Voigt, Principles of genetic circuit design, Nature Methods (2014)
- Paul François, Evolving phenotypic networks in silico, Seminars in Cell & Developmental Biology (2014)
- Adrien Henry, Mathieu Hemery, Paul François, φ-evo: A program to evolve phenotypic models of biological networks, PLoS Computational Biology (2018)
- Yee Wen Choon, Mohd Saberi Mohamad, Safaai Deris, Rosli Md. Illias, Chuii Khim Chong, Lian En Chai, Sigeru Omatu, Juan Manuel Corchado, Differential Bees Flux Balance Analysis with OptKnock for In Silico Microbial Strains Optimization, PLoS One (2014)
- Rongming Liu, Marcelo C. Bassalo, Ramsey I. Zeitoun, Ryan T.Gill, Genome scale engineering techniques for metabolic engineering, Metabolic Engineering (2015)
- Teresa Nogueira, Mathias Springer, Post-transcriptional control by global regulators of gene expression in bacteria, Current Opinion in Microbiology (2000)
- Atilla Becskei, Luis Serrano, Engineering stability in gene networks by autoregulation, Nature (2000)
- Hamid Bolouri, Eric H. Davidson, Modeling transcriptional regulatory networks, Bioessays (2002)
- Nitzan Rosenfeld, Michael B. Elowitz, Uri Alon, Negative Autoregulation Speeds the Response Times of Transcription Networks, Journal of Molecular Biology (2002)
- Howard M Salis, Ethan A Mirsky, Christopher A Voigt, Automated design of synthetic ribosome binding sites to control protein expression, Nature Biotechnology (2009)
- Travis S Bayer, Christina D Smolke, Programmable ligand-controlled riboregulators of eukaryotic gene expression, Nature (2000)
- Jarred M Callura, Daniel J Dwyer, Farren J Isaacs, Charles R Cantor, and James J Collins, Tracking, tuning, and terminating microbial physiology using synthetic riboregulators, PNAS (2010)