Try the new BioModels platform (beta)
BioModels Database logo

BioModels Database


MODEL1011020000 - Kaizu2010_BuddingYeastCellCycle_Map


The following model is part of the non-curated branch of BioModels Database. While the syntax of the model has been verified, its semantics remains unchecked. Any annotation present in the models is not a product of BioModels' annotators. We are doing our best to incorporate this model into the curated branch as soon as possible. In the meantime, we display only limited metadata here. For further information about the model, please download the SBML file.

 |   |   |  Send feedback
Reference Publication
Publication ID: 20865008
Kaizu K, Ghosh S, Matsuoka Y, Moriya H, Shimizu-Yoshida Y, Kitano H.
A comprehensive molecular interaction map of the budding yeast cell cycle.
Mol. Syst. Biol. 2010 Sep; 6: 415
Department of Science and Technology, Keio University, Kanagawa, Japan.  [more]
Original Model:
Submitter: Lukas Endler
Submission Date: 02 Nov 2010 14:38:29 UTC
Last Modification Date: 27 Jul 2011 14:04:31 UTC
Creation Date: 02 Nov 2010 15:03:57 UTC
Non kinetic model: network icon.
bqbiol:isVersionOf Gene Ontology cell cycle
bqbiol:hasTaxon Taxonomy Saccharomyces cerevisiae

This is the map described in and accompanying the article:
A comprehensive molecular interaction map of the budding yeast cell cycle.
Kaizu K, Ghosh S, Matsuoka Y, Moriya H, Shimizu-Yoshida Y, Kitano H. Mol Syst Biol. 2010 Sep 21;6:415. Pmid: 20865008 ; doi: 10.1038/msb.2010.73
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.

This model was taken from the supplementary material of the original article ( Supplementary Data S1 ) and is best viewed with CellDesigner 4.1 and higher ( ).

Creators: Kazunari Kaizu (mail address), Samik Ghosh, Yukiko Matsuoka, Hisao Moriya, Yuki Shimizu-Yoshida, Hiroaki Kitano Creation date: Jan 2009 Last modification: 28th July 2010 Created by CellDesigner 4.1 ( Stored in CellDesigner annotated SBML Level 2 Version 4 format. (c) The Systems Biology Institute

This model originates from BioModels Database: A Database of Annotated Published Models ( It is copyright (c) 2005-2011 The Team.
To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not..

To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.