Building synthetic networks of the budding yeast cell-cycle using swarm intelligence

Gonzalo A. Ruz, Tania Timmermann, Eric Goles

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

12 Scopus citations

Abstract

A swarm intelligence technique called the bees algorithm is formulated to build synthetic networks of the budding yeast cell-cycle. The resulting networks contain the original fixed points of the budding yeast cell-cycle network plus additional fixed points to reduce the basin size of the fixed point associated to the G1 phase of the cell-cycle, with the purpose of promoting cell proliferation for biotechnological applications. One thousand synthetic networks were found using the bees algorithm, 84.5% had basins size for the G1 fixed point less or equal to 10, whereas the original model has a basin size for that fixed point of 1764. One of the synthetic networks was analyzed by a biologist concluding that the resulting model was quite consistent from a biological point of view, supporting the proposed method as a tool for biologist to construct synthetic networks with desired characteristics.

Original languageEnglish
Title of host publicationProceedings - 2012 11th International Conference on Machine Learning and Applications, ICMLA 2012
Pages120-125
Number of pages6
DOIs
StatePublished - 2012
Event11th IEEE International Conference on Machine Learning and Applications, ICMLA 2012 - Boca Raton, FL, United States
Duration: 12 Dec 201215 Dec 2012

Publication series

NameProceedings - 2012 11th International Conference on Machine Learning and Applications, ICMLA 2012
Volume1

Conference

Conference11th IEEE International Conference on Machine Learning and Applications, ICMLA 2012
Country/TerritoryUnited States
CityBoca Raton, FL
Period12/12/1215/12/12

Keywords

  • Boolean networks
  • bees algorithm
  • cell-cycle
  • computational biology
  • gene regulatory networks

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