Economic Principles in Cell Biology          

1. Agustín G. Yabo , INRAE
2. Andrea De Martino , Politecnico di Torino
3. Andrea Weiße , University of Edinburgh
4. Andreas Kremling , Technical University Munich
5. Anne Goelzer , INRAE
6. Benjamin Mauroy , CNRS
7. Christophe Goupil , Université Paris-Diderot
8. Cyril Karamaoun , Sorbonne Universitë
9. Daan de Groot , University of Basel
10. Dafni Giannari , University of Toronto
11. David Lacoste , ESPCI Paris
12. David Tourigny , University of Birmingham
13. Diana Széliová , University of Vienna
14. Diego A. Oyarzún , University of Edinburgh
15. Elad Noor , Weizmann Institute of Science
16. Elena Pascual Garcia, University of Potsdam
17. Éric Herbert , Université Paris-Diderot
18. Felipe Scott , Universidad de los Andes
19. Frédérique Noël, Sorbonne Université
20. Gabriele Micali , Humanitas Research Hospital
21. Hadrien Delattre , University of Warwick
22. Herbert Sauro , University of Washington
23. Hidde de Jong , INRIA
24. Hollie J. Hindley, University of Edinburgh
25. Hugo Dourado , Heinrich-Heine University Düsseldorf
26. Jacopo Grilli , ICTP Trieste
27. Jan Philipp Dapprich , Potsdam University
28. Marcelo Rivas-Astroza , Universidad Tecnológica Metropolitana
29. Marco Cosentino Lagomarsino , IFOM
30. Markus Köbis, Norwegian University of Science and Technology
31. Mattia Corigliano , IFOM
32. Meike Wortel , University of Amsterdam
33. Ohad Golan
34. Olivier Rivoire , ESPCI Paris
35. Orkun S. Soyer , University of Warwick
36. Paul Ross
37. Pranas Grigaitis , Vrije Universiteit Amsterdam
38. Robert West , University of Warwick
39. Steffen Waldherr , University of Vienna
40. Wolfram Liebermeister , INRAE

We thank all the authors and everyone else who worked on our book! Special thanks go to Michela Pauletti, Maarten Droste, and Milena Milovanović for proofreading many chapters of the book.

1. Diana Széliová , University of Vienna
2. Elad Noor , Weizmann Institute of Science
3. Herbert Sauro , University of Washington
4. Markus Köbis, Norwegian University of Science and Technology
5. Michela Pauletti
6. Ohad Golan
7. Pranas Grigaitis , VU Amsterdam
8. Wolfram Liebermeister , INRAE

1. The cell as a factory This chapter was planned and outlined by Ohad Golan, with the help of Wolfram Liebermeister and Elad Noor

2. An inventory of cell components This chapter was planned and outlined by Pranas Grigaitis and Diana Széliová, with the help of Wolfram Liebermeister and Elad Noor. Feedback was provided by Samira van den Bogaard.

3. Cell metabolism We thank Francesco Moro, Markus Arthur Köbis, and Maarten Droste for comments on an earlier version of this chapter. We acknowledge funding from the UK's Biotechnology and Biological Sciences Research Council (BBSRC) grant ID BB/T010150/1 and from the Gordon and Betty Moore Foundation grant ID GBMF9200.

4. Metabolic flux distributions This chapter was planned, outlined and written by Daan de Groot, David Tourigny and Felipe Scott, with input by David Ruckerbauer on Minimal Cut Sets. Part of the introduction was written by W. Liebermeister. Exercises were added by Felipe Scott and Andreas Kremling. Feedback was provided by Diana Széliová, Samira van den Bogaard, Maarten Droste, Wolfram Liebermeister, Elad Noor, and Herbert Sauro.

5. Optimization of metabolic fluxes This chapter was planned and written by Daan de Groot, David Tourigny and Felipe Scott. Exercises were added by Felipe Scott. Feedback was provided by Diana Széliová, Samira van den Bogaard, Maarten Droste, Wolfram Liebermeister, Elad Noor, and Herbert Sauro.

6. The enzyme cost of metabolic fluxes This chapter was drafted and written by Wolfram Liebermeister and Elad Noor and has been reviewed by Avi Flamholz, Daan de Groot, Maarten Droste, and Ohad Golan.

7. Optimization of metabolic states This chapter was planned and written by the authors and initially discussed with Jürgen Zanghellini. The chapter was reviewed by David Tourigny and Hugo Dourado and discussed with S. Müller.

8. Principles of cell growth Ohad Golan conceived and designed the chapter. Ohad Golan, Hidde de Jong, and Andrea Weiße wrote sections 1-3. All authors provided critical feedback and helped shape the chapter. Hidde de Jong acknowledges support from the Agence National de la Recherche (MAXIMIC, ANR-17-CE40-0024-01).

9. Resource allocation in complex cell models This chapter was planned and outlined by the authors after initial discussions with Oliver Bodeit, Martin Lercher, and Ralf Steuer, and has been reviewed by Steffen Waldherr and Francesco Moro.

10. Optimal cell behavior in time This chapter was planned and outlined by Hidde de Jong and Steffen Waldherr. The sections were written Diego Oyarzún (dynamic optimization of enzyme expression in metabolic pathways), Hidde de Jong and Agustín Yabo (dynamic optimization of coarse-grained models of cellular growth), and Dafni Giannari and Steffen Waldherr (dynamic flux balance analysis). Agustín Yabo performed the numerical optimization studies for the examples discussed in the chapter. Andreas Kremling, Wolfram Liebermeister, and Felipe Scott provided comments on the chapter draft. Hidde de Jong acknowledges support from the Agence National de la Recherche (MAXIMIC, ANR-17-CE40-0024-01).

11. Diversity of metabolic fluxes in a cell population This chapter was planned and outlined by the authors, who are indebted with Daan de Groot for many useful comments and suggestions, as well as with Daniele De Martino, Wolfram Liebermeister, Elad Noor and David Tourigny for discussions.

12. Cells in the face of uncertainty The chapter was written by David Lacoste, Olivier Rivoire, and David Tourigny. We thank Daan de Groot for reviewing this chapter.

13. Strategies for cell size control This chapter was planned and outlined by Marco Cosentino Lagomarsino, with the help of the other authors. All the authors wrote the introduction and discussion sections (1 and 7). Mattia Corigliano drafted section 5, Marco Cosentino Lagomarsino drafted sections 2 and 11.6, Jacopo Grilli drafted section 3, Gabriele Micali drafted section 4. We thank Andrea De Martino for proof correction and feedback on our manuscript.

14. Economy of organ form and function Cyril Karamaoun, Benjamin Mauroy and Frédérique Noël wrote the major content of the chapter, and contributed equally to this work. Interlude boxes were written by Christophe Goupil and Eric Herbert. This chapter has been kindly reviewed by Paul Ross.

We are grateful for public funding that allows us to write this book, coming from