Sci-GaIA Workshop on "e-Infrastructures and Open Science in support of Public Health" Wednesday, 8 February 2017 Kenyatta University Conference Centre - Nairobi - Kenya Dr Anastasia Anagnostou anastasia.anagnostou@brunel.ac.uk Modelling & Simulation Group Department of Computer Science Brunel University London

Outline Modelling & Simulation Group at Brunel University London Open Simulation for Public Health in Africa Infectious disease simulation Physical activity interventions simulation (EMPHASIS) HIV testing clinics in South Africa simulation

Brunel M&S Group Director: Dr Simon JE Taylor e-Infrastructures & e-Science in Africa eI4Africa, Sci-GaIA, TANDEM Healthcare simulation EMPHASIS: Physical activity interventions Emergency Medical Services MAPGuide: Atrial fibrillation & prostate cancer pathways High Performance, Distributed Simulation Ford, Saker Solutions, Sellafield, Standards (Standard SISO-STD-006-2010) Cloud-based Simulation CloudSME, CraftBrew, AIMS (MSaaS), COLA Research-led Education Courses (NATCOR, PG, UG) and student projects (Industry, Hillingdon Hospital, NASA, …)

Infectious disease simulation Open Simulation for Public Health in Africa Infectious disease simulation Created to demonstrate open science principles in Africa Thanks to Mr Adedeji Fabiyi! Agent-based Simulation written in REPAST SIMPHONY (java-based open source)

Infectious disease simulation Open Simulation for Public Health in Africa Infectious disease simulation Models the behaviour of an infectious disease with an annual outbreak There are three types of agents that represent: Susceptible population Infected population Recovered population A susceptible agent becomes infected when gets in contact with an infected agent An infected agent recovers after a period of time and becomes recovered agent A recovered agent has a certain level of immunity which decreases after a number of contacts with infected agents and then can be infected again We want to study the behaviour of the outbreak when the dynamics of the population change

Infectious disease simulation Open Simulation for Public Health in Africa Infectious disease simulation

Infectious disease simulation Open Simulation for Public Health in Africa Infectious disease simulation Research artefacts of simulation Simulations Models Data Results Computing resources How do you get scientists to easily (openly) access these research artefacts? Approach Store the simulation software, model, data (results) in an Open Access Document Repository assign DOIs Access the software via a Science Gateway “Access” the scientists via ORCID

Taylor, S.J.E. et al. “Demonstrating Open Science for Modeling & Simulation Research” DS-RT 2016 to appear. Concept Paper

Science Gateway (web link) Links and references to everything…. Me (ORCID) “Package” (DOI link) Software (DOI link) Data (DOI link) Science Gateway (web link)

Submit your documents to a OADR

Example DOIs

Finally - Make it all searchable

Physical activity interventions simulation (EMPHASIS) Open Simulation for Public Health in Africa Physical activity interventions simulation (EMPHASIS) UK DoH funded, lead Prof. Fox-Rushby, HERG (Brunel) Agent-based Simulation written in REPAST SIMPHONY (java-based open source)

Physical activity interventions simulation (EMPHASIS) Open Simulation for Public Health in Africa Physical activity interventions simulation (EMPHASIS)

Physical activity interventions simulation (EMPHASIS) Open Simulation for Public Health in Africa Physical activity interventions simulation (EMPHASIS) Next steps Currently undergoing translation into an open simulation Depositing the artefacts into OADR Creating science gateway application Begin collaboration between Brunel and the University of Accra to study Physical Activity interventions in Ghana Challenge Can UK population assumptions be translated to Ghanaian population assumptions?

HIV testing clinics in South Africa simulation Open Simulation for Public Health in Africa HIV testing clinics in South Africa simulation Shout-it-now is a HIV testing charity in Western Cape Shout-it-now wanted to increase the number of people being seen Collaboration with Simul8 led to Discrete-event Simulation being used to achieve this

Open Simulation for Public Health in Africa HIV testing clinics in South Africa simulation Brunel initiated an open access version of the model to show simulation in action in an African context Educators can freely access the simulation at the link below Example of industrial science gateway http://www.simul8healthcare.com/shout-it-now-simulation

Open Simulation for Public Health in Africa HIV testing clinics in South Africa simulation http://www.simul8healthcare.com/shout-it-now-simulation

Open Simulation for Public Health in Africa HIV testing clinics in South Africa simulation http://www.simul8healthcare.com/shout-it-now-simulation

Summary Thank you! Any questions Open Simulation for Public Health in Africa Infectious disease simulation Physical activity interventions simulation (EMPHASIS) HIV testing clinics in South Africa simulation Thank you! Any questions