We describe the ways in which Galaxy, a web-based reproducible research platform, can be used for web-based sharing of complex computational models. Galaxy allows users to seamlessly customize and run simulations on cloud computing resources, a concept we refer to as Models and Simulations as a Service (MaSS). To illustrate this application of Galaxy, we have developed a tool suite for simulati...

We propose a detailed CellML model of the human cerebral circulation that runs faster than real time on a desktop computer and is designed for use in clinical settings when the speed of response is important. A lumped parameter mathematical model, which is based on a one-dimensional formulation of the flow of an incompressible fluid in distensible vessels, is constructed using a bond graph form...

The human physiome is envisioned as the quantitative description of the whole of human physiology. Researchers actively working toward achieving this grand challenge have populated publicly available repositories of quantitative physiological models; however, no mechanism has been developed that integrates the information from these models into a single knowledge resource that can be said to re...

The sinoatrial node (SAN) is the natural pacemaker of mammalian heart. It has been subject several mathematical studies, aimed at reproducing its electrical response under normal sinus rhythms, as well various conditions. Such studies were traditionally done using data from rabbit SAN cells. More recently, human cell have become available, resulting in publication a model (Fabbri et al., 2017),...

MOTIVATION Only models that are accessible to researchers can be reused. As computational models evolve over time, a number of different but related versions of a model exist. Consequently, tools are required to manage not only well-curated models but also their associated versions. RESULTS In this work, we discuss conceptual requirements for model version control. Focusing on XML formats suc...

As a case-study of biosimulation model integration, we describe our experiences applying the SemSim methodology to integrate independently-developed, multiscale models of cardiac circulation. In particular, we have integrated the CircAdapt model (written by T. Arts for MATLAB) of an adapting vascular segment with a cardiovascular system model (written by M. Neal for JSim). We report on three re...

BACKGROUND Spontaneous reporting on adverse drug reactions (ADR) has been established in Malaysia since 1987, and although these reports are monitored by the Malaysia drug monitoring authority, the National Pharmaceutical Control Bureau, information about ADRs in the paediatric patient population still remains unexplored. The aims of this study, therefore, were to characterize the ADRs reported...