A comprehensive molecular interaction map of the budding yeast cell cycle

Kazunari Kaizu, Samik Ghosh, Yukiko Matsuoka, Hisao Moriya, Yuki Shimizu-Yoshida, Hiroaki Kitano

Research output: Contribution to journalArticle

50 Citations (Scopus)

Abstract

With the accumulation of data on complex molecular machineries coordinating cell-cycle dynamics, coupled with its central function in disease patho-physiologies, it is becoming increasingly important to collate the disparate knowledge sources into a comprehensive molecular network amenable to systems-level analyses. In this work, we present a comprehensive map of the budding yeast cell-cycle, curating reactions from ∼600 original papers. Toward leveraging the map as a framework to explore the underlying network architecture, we abstract the molecular components into three planes-signaling, cell-cycle core and structural planes. The planar view together with topological analyses facilitates network-centric identification of functions and control mechanisms. Further, we perform a comparative motif analysis to identify around 194 motifs including feed-forward, mutual inhibitory and feedback mechanisms contributing to cell-cycle robustness. We envisage the open access, comprehensive cell-cycle map to open roads toward community-based deeper understanding of cell-cycle dynamics.

Original languageEnglish
Article number415
JournalMolecular Systems Biology
Volume6
DOIs
Publication statusPublished - 2010

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Saccharomycetales
Molecular interactions
Cell Cycle
Yeast
cell cycle
Cells
yeasts
Interaction
Cell signaling
Pathophysiology
Physiology
Network architecture
Network Architecture
Feedforward
pathophysiology
roads
Feedback
Robustness

Keywords

  • comprehensive map
  • large-scale network
  • yeast cell cycle

ASJC Scopus subject areas

  • Medicine(all)
  • Immunology and Microbiology(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)
  • Computational Theory and Mathematics
  • Information Systems
  • Applied Mathematics

Cite this

A comprehensive molecular interaction map of the budding yeast cell cycle. / Kaizu, Kazunari; Ghosh, Samik; Matsuoka, Yukiko; Moriya, Hisao; Shimizu-Yoshida, Yuki; Kitano, Hiroaki.

In: Molecular Systems Biology, Vol. 6, 415, 2010.

Research output: Contribution to journalArticle

Kaizu, Kazunari ; Ghosh, Samik ; Matsuoka, Yukiko ; Moriya, Hisao ; Shimizu-Yoshida, Yuki ; Kitano, Hiroaki. / A comprehensive molecular interaction map of the budding yeast cell cycle. In: Molecular Systems Biology. 2010 ; Vol. 6.
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