DATA, ALGORITHMS AND INFRASTRUCTURE – CHALLENGES
FOR FUNDING PROGRAMS
Modeling Science, Technology & Innovation Conference
Grace C.Y. Peng, Ph.D.May 18, 2016Washington D.C.
Interagency Modeling and Analysis Group
Multiscale Modeling
To Populations Levels
Greater than the sum of its parts
2016 MSM Working GroupsMultiscale Systems Biology Working GroupBiomechanics Working GroupTheoretical and Computational MethodsModel and Data Sharing Working GroupHigh Performance Computing Working GroupClinical and Translational Issues Working GroupComputational Neuroscience Working GroupPopulation Modeling Working Group Cell-to-Macroscale Working GroupIntegrated multiscale biomaterials experiment and modeling group (ImuBEAM)Committee on Credible Practice of Modeling & Simulation in Healthcare Description
Environment
Organism
Organ Systems
Organs
Tissues
Cells, organelles
Pathways
Protein
RNA
DNA
Physiological Function
Distributed across multiple biological scales
“…understanding physiological systems in
health and disease can only be achieved through
quantitative modeling and cannot be understood using
“mental models.””
Winslow et al., 2012
Winslow et al., 2012
Predictive Model Index
MODEL SHARING
MODEL STANDARDS & SHARING
STANDARDS
DATA SHARING
MODEL & DATA SHARING
MODELREPRODUCIBILITY
WWebsite: hhttp:://tc-comp-bio-physiome.embs.org/
CCBaP TTC 2015-2016 ActivitySPECIAL ISSUE ON MODEL SHARING &
REPRODUCIBILITYJournalIEEE Transaction on Biomedical EngineeringGoalto raise awareness of the importance of model sharing and reproducibility while understanding the differences and overlaps between communitiesFormata collection of reviews, perspective articles and research studies related to reproducibility of computational models in biomedical research - joint diary (creator and user), special issue itself is an experiment on reproducibility Disciplinessystems biology & biomechanicsCo-Editors: Ahmet Erdemir – [email protected] Sauro - [email protected]
2016 MSM Working GroupsMultiscale Systems Biology Working GroupBiomechanics Working GroupTheoretical and Computational MethodsModel and Data Sharing Working GroupHigh Performance Computing Working GroupClinical and Translational Issues Working GroupComputational Neuroscience Working GroupPopulation Modeling Working Group Cell-to-Macroscale Working GroupIntegrated multiscale biomaterials experiment and modeling group (ImuBEAM)Committee on Credible Practice of Modeling & Simulation in Healthcare Description
PAR-15-085 Model Credibility PlanStrategies and metrics for evaluating the credibility of the proposed multiscale model(s) to address the question(s) of interest within the intended domain of application in biomedical, biological, behavioral, environmental or clinical research3rd party evaluationIntention is to move towards model sharing and reuse in the community
NOTE to Applicants: Investigators should take this opportunity to propose (and allocate funds for) 3rd party evaluation of the credibility of the proposed model under development to address the question(s) of interest within the intended domain of application in biomedical, biological, behavioral, environmental or clinical research. Do not list names of 3rd
party evaluators. The program officer and science officers will work with the PI to determine the appropriate 3rd party evaluators during the funding period.
NOTE to Applicants: Investigators should take this opportunity to propose (and allocate funds for) 3rd party evaluation of the credibility of the proposed model under development to address the question(s) of interest within the intended domain of application in biomedical, biological, behavioral, environmental or clinical research. Do not list names of 3rd
party evaluators. The program officer and science officers will work with the PI to determine the appropriate 3rd party evaluators during the funding period.
• How do we share and integrate complex, multi-modal, high-throughput and sparse data?
• How much do we push for developing standards?
Current Programmatic Challenges
Stimulating Peripheral Activity to Relieve Conditions (SPARC)
A New Common Fund Program
SPARC- Stimulating Peripheral Activity to Relieve ConditionsOpportunity: Neuromodulation of end-organ function holds promise in treating many diseases/conditions.
Challenge: The mechanisms of action remain poorly understood.
SPARC – Research ComponentsFour Interactive and Integrated Components
Labels: Resources/Tools - , Data/Analytics/Modeling -Component 1: Anatomical and Functional
Mapping - Innervation of Major Organs
Component 4: SPARC Data Coordination
Component 3: Existing Market-Approved Technology for New
Market Indications
Enhance and Refine the Functional Mapping; Preclinical testing of
therapies – Phase 2
Exploratory Tools and Technologies to Understand PNS Control of Organ Function –
Phase 1Early- to Late-Stage Technologies to Discover
Underlying Neurophysiology of Neuromodulation Therapies - Phase 2
Anatomical and Functional Mapping- Phase 1
Assembly of Data from All SPARC Projects - Phase 1
Integrated, Predictive, Functional and Anatomical Neural Circuit Maps - Phase 2
Component 2: Next Generation Tools and Technologies
Clinical Studies: Explore the Utility of Existing Devices to Address New Indications - Phase 2
Pre-clinical Testing: Explore New Indications for Market-Approved Devices - Phase 1
New Therapeutic Opportunities and Methodologies - Phase 3
Development of Next Gen Neuromodulation Therapies - Phase 3
SPARC PM and NIH program staff
Brain Research through Advancing Innovative Neurotechnologies
NIH and the BRAIN Initiative
http://www.nih.gov/science/brain/Search: NIH Brain Initiative
BRAIN Initiative: 2025 Goals• #1. Discovering diversity: Identify and provide experimental access to the
different brain cell types to determine their roles in health and disease.
• #2. Maps at multiple scales: Generate circuit diagrams that vary in resolution from synapses to the whole brain.
• #3. The brain in action: Produce a dynamic picture of the functioning brain by developing and applying improved methods for large-scale monitoring of neural activity.
• #4. Demonstrating causality: Link brain activity to behavior with precise interventional tools that change neural circuit dynamics.
the
Tools for Circuit
Diagrams
Tech. to Monitor Neural Activity
Precise Inter-
ventionalTools
• #5. Identifying fundamental principles: Produce conceptual foundations for understanding the biological basis of mental processes through development of new theoretical and data analysis tools.
• #6. Advancing human neuroscience: Develop innovative technologies to understand the human brain and treat its disorders; create and support integrated human brain research networks.
• #7. From BRAIN Initiative to the brain: Integrate new technological and conceptual approaches produced in Goals #1-6 to discover how dynamic patterns of neural activity are transformed into cognition, emotion, perception, and action in health and disease.
Theory and Data
Analysis Tools
Advance AdvanceHuman Human
Neuroscience
Integrate pe IntegrateApproaches
2016 IMAG MSM Consortium MeetingOctober 26-27, 2016October 28, 2016 (Satellites)
Thank You!
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