title: Databases for multilevel biophysiology research available at Physiome.jp.
abstract: Physiome.jp (http://physiome.jp) is a portal site inaugurated in 2007 to support model-based research in physiome and systems biology. At Physiome.jp, several tools and databases are available to support construction of physiological, multi-hierarchical, large-scale models. There are three databases in Physiome.jp, housing mathematical models, morphological data, and time-series data. In late 2013, the site was fully renovated, and in May 2015, new functions were implemented to provide information infrastructure to support collaborative activities for developing models and performing simulations within the database framework. This article describes updates to the databases implemented since 2013, including cooperation among the three databases, interactive model browsing, user management, version management of models, management of parameter sets, and interoperability with applications.
authors.affiliation: Integrated Open Systems Unit, Okinawa Institute of Science and Technology Graduate University Okinawa, Japan.
authors.forename: Yoshiyuki
authors.initials: Y
authors.lastname: Asai
authors.affiliation: Integrated Open Systems Unit, Okinawa Institute of Science and Technology Graduate University Okinawa, Japan.
authors.forename: Takeshi
authors.initials: T
authors.lastname: Abe
authors.affiliation: Intasect Communications Inc. Osaka, Japan.
authors.forename: Li
authors.initials: L
authors.lastname: Li
authors.affiliation: Neuroinformatics Japan Center, RIKEN Brain Science Institute Saitama, Japan.
authors.forename: Hideki
authors.initials: H
authors.lastname: Oka
authors.affiliation: Department of Mechanical Science and Bioengineering, Osaka University Osaka, Japan.
authors.forename: Taishin
authors.initials: T
authors.lastname: Nomura
authors.affiliation: Integrated Open Systems Unit, Okinawa Institute of Science and Technology Graduate University Okinawa, Japan ; The Systems Biology Institute Tokyo, Japan.
authors.forename: Hiroaki
authors.initials: H
authors.lastname: Kitano
keywords: databases; interoperability among databases; interoperability with applications; model sharing; multilevel models; physiome and systems biology; team development