Knowledge Systematization for Cellular Senescence Processes by
                         Homeostasis Imbalance Process Ontology
                         Yuki Yamagata 1, 2, Shuichi Onami 1, 2, and Hiroshi Masuya2, 3
                         1
                          RIKEN Center for Biosystems Dynamics Research, 2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047,
                         Japan, 2 RIKEN Information R&D and Strategy Headquarters, 2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe
                         650-0047, Japan, 3 RIKEN BioResource Research Center, Kouyadai 3-1-1 Tsukuba, Ibaraki 305-0074 Japan

                                          Abstract
                                          In the science of aging, controlling cellular senescence attracts increasing attention. This study
                                          focuses on cellular senescence and systematizes knowledge by developing the homeostasis
                                          imbalance process ontology (HoIP). We uniformly represent a series of processes related to
                                          cellular senescence as an imbalance between stress and its response. Moreover, we show how
                                          cellular senescence brings benefits and deleterious effects in the embryonic, acute, and chronic
                                          course.

                                          Keywords 1
                                          cellular senescence, homeostasis imbalance process ontology, knowledge systematization

                         1. Introduction
                                                                                                                     3. Discussion
                             Cellular senescence is a crucial factor in aging.
                         This abstract introduces an organization of                                                    This study shows that cellular senescence
                         knowledge concerning the processes of cellular                                              benefits the embryonic and acute course via the
                         senescence. We have developed a homeostasis                                                 homeostatic imbalance. Especially in embryos,
                         imbalance        process      ontology        (HoIP)                                        the homeostatic imbalance might lead to dynamic
                         (https://bioportal.bioontology.org/ontologies/HO                                            equilibrium, i.e., homeorhesis [2]. This
                         IP) [1]. We report the representation of the course                                         framework also highlights the fact that chronic
                         of cellular senescence in HoIP.                                                             cellular senescence has deleterious tissue effects.
                                                                                                                     HoIP will aid in understanding the fundamental
                         2. Methods and Results                                                                      mechanisms of cellular senescence.

                             We manually reviewed textbooks and articles                                             4. Acknowledgements
                         using Protégé 5.5.0. This work captured the
                         process of cellular senescence as the outcome of                                               This work was supported by JSPS KAKENHI
                         homeostasis imbalance between stress (e.g., DNA                                             Grant Number JP22K17959 and the RIKEN Open
                         damage) and stress response. Referring to upper                                             Life Science Platform Project.
                         ontology BFO and OBO-Foundry ontologies in
                         biomedicine, we created a new definition of the
                         course of cellular senescence in HoIP.                                                      5. References
                             HoIP describes each course in terms of causal
                         processes. For example, in the chronic cellular
                         senescence course, we confirmed that sustained                                              [1] Yamagata et al. Homeostasis Imbalance
                         senescence-associated       secretory  phenotype                                                Process Ontology: a Study on COVID-19
                         (SASP) secretion could cause chronic                                                            Infectious Processes, VDOS-2021, 2021.
                         inflammation related to oncogenesis and type 2                                              [2] Waddington, C. H. (2014). The strategy of
                         diabetes. In contrast, transient SASP might cause                                               the genes. Routledge.
                         DNA repair, tissue repair, and tissue remodeling
                         in the embryonic and acute courses.

                         ICBO 2022, September 25–28, 2022, Ann Arbor, MI, USA
                         EMAIL: yuki.yamagata@riken.jp (A. 1)
                         ORCID: 000-0002-9673-1283 (A. 1)
                                      © 2020 Copyright for this paper by its authors. Use permitted under Creative
                                      Commons License Attribution 4.0 International (CC BY 4.0).

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