A comprehensive molecular interaction map of the budding yeast cell cycle.
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.
Kaizu
Kazunari
K
Department of Science and Technology, Keio University, Kanagawa, Japan.
Ghosh
Samik
S
Matsuoka
Yukiko
Y
Moriya
Hisao
H
Shimizu-Yoshida
Yuki
Y
Kitano
Hiroaki
H
D020816:Amino Acid Motifs; D002453:Cell Cycle; D018797:Cell Cycle Proteins / Q000378:metabolism; D005656:Fungal Proteins / Q000378:metabolism; D015966:Gene Expression Regulation, Fungal; D008954:Models, Biological; D015233:Models, Statistical; D016366:Open Reading Frames; D004718:Saccharomycetales / Q000235:genetics / Q000502:physiology*; D015398:Signal Transduction
D018797:Cell Cycle Proteins; D005656:Fungal Proteins