An integrated model quantitatively describing metabolism, growth and cell cycle in budding yeast

Pasquale Palumbo, Marco Vanoni, Federico Papa, Stefano Busti, Meike Wortel, Bas Teusink, Lilia Alberghina

Research output: Chapter in Book / Report / Conference proceedingConference contributionAcademicpeer-review

Abstract

Computational models are expected to increase understanding of how complex biological functions arise from the interactions of large numbers of gene products and biologically active low molecular weight molecules. Recent studies underline the need to develop quantitative models of the whole cell in order to tackle this challenge and to accelerate biological discoveries. In this work we describe three major functions of a yeast cell: Metabolism, Growth and Cycle, through two coarse grain models, MeGro (Metabolism + Growth) and GroCy (Growth + Cycle). GroCy effectively recapitulates major phenotypic properties of cells grown in glucose and ethanol supplement media. MeGro can act as a parameter generator for GroCy. The resulting iMeGroCy integrated model can be used as a scaffold for molecularly detailed models of yeast functions.

Original languageEnglish
Title of host publicationArtificial Life and Evolutionary Computation - 12th Italian Workshop, WIVACE 2017, Revised Selected Papers
PublisherSpringer/Verlag
Pages165-180
Number of pages16
ISBN (Electronic)9783319786582
ISBN (Print)9783319786575
DOIs
Publication statusPublished - 2018
Event12th Italian Workshop on Artificial Life and Evolutionary Computation, WIVACE 2017 - Venice, Italy
Duration: 19 Sep 201721 Sep 2017

Publication series

NameCommunications in Computer and Information Science
Volume830
ISSN (Print)1865-0929

Conference

Conference12th Italian Workshop on Artificial Life and Evolutionary Computation, WIVACE 2017
CountryItaly
CityVenice
Period19/09/1721/09/17

Fingerprint

Integrated Model
Cell Cycle
Metabolism
Yeast
Cells
Cycle
Cell
Scaffold
Ethanol
Glucose
Scaffolds
Computational Model
Accelerate
Genes
Molecular weight
Molecules
Model
Generator
Gene
Interaction

Keywords

  • Computational models
  • Systems biology
  • Whole cell models

Cite this

Palumbo, P., Vanoni, M., Papa, F., Busti, S., Wortel, M., Teusink, B., & Alberghina, L. (2018). An integrated model quantitatively describing metabolism, growth and cell cycle in budding yeast. In Artificial Life and Evolutionary Computation - 12th Italian Workshop, WIVACE 2017, Revised Selected Papers (pp. 165-180). (Communications in Computer and Information Science; Vol. 830). Springer/Verlag. https://doi.org/10.1007/978-3-319-78658-2_13
Palumbo, Pasquale ; Vanoni, Marco ; Papa, Federico ; Busti, Stefano ; Wortel, Meike ; Teusink, Bas ; Alberghina, Lilia. / An integrated model quantitatively describing metabolism, growth and cell cycle in budding yeast. Artificial Life and Evolutionary Computation - 12th Italian Workshop, WIVACE 2017, Revised Selected Papers. Springer/Verlag, 2018. pp. 165-180 (Communications in Computer and Information Science).
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Palumbo, P, Vanoni, M, Papa, F, Busti, S, Wortel, M, Teusink, B & Alberghina, L 2018, An integrated model quantitatively describing metabolism, growth and cell cycle in budding yeast. in Artificial Life and Evolutionary Computation - 12th Italian Workshop, WIVACE 2017, Revised Selected Papers. Communications in Computer and Information Science, vol. 830, Springer/Verlag, pp. 165-180, 12th Italian Workshop on Artificial Life and Evolutionary Computation, WIVACE 2017, Venice, Italy, 19/09/17. https://doi.org/10.1007/978-3-319-78658-2_13

An integrated model quantitatively describing metabolism, growth and cell cycle in budding yeast. / Palumbo, Pasquale; Vanoni, Marco; Papa, Federico; Busti, Stefano; Wortel, Meike; Teusink, Bas; Alberghina, Lilia.

Artificial Life and Evolutionary Computation - 12th Italian Workshop, WIVACE 2017, Revised Selected Papers. Springer/Verlag, 2018. p. 165-180 (Communications in Computer and Information Science; Vol. 830).

Research output: Chapter in Book / Report / Conference proceedingConference contributionAcademicpeer-review

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Palumbo P, Vanoni M, Papa F, Busti S, Wortel M, Teusink B et al. An integrated model quantitatively describing metabolism, growth and cell cycle in budding yeast. In Artificial Life and Evolutionary Computation - 12th Italian Workshop, WIVACE 2017, Revised Selected Papers. Springer/Verlag. 2018. p. 165-180. (Communications in Computer and Information Science). https://doi.org/10.1007/978-3-319-78658-2_13