IMAG/MSM Working Group on Multiscale Modeling and Viral Pandemics Mini Seminars
Nov 4, 2021
Welcome - The meeting will start at 3PM EDT
NOTE: THE MEETING WILL BE RECORDED, STREAMED AND PUBLICLY AVAILABLE�FOR THOSE MEMBERS UNABLE TO ATTEND
Agenda
Note we are using more stringent security for our Zoom meetings. �You will now need to use the link in the email that you get after
signing up.
People
Co-Lead: Reinhard Laubenbacher, PhD
Department of Medicine
Laboratory for Systems Medicine
University of Florida
reinhard.laubenbacher@medicine.ufl.edu
Co-Lead: James A. Glazier, PhD
Dept. of Intelligent Systems Engineering and Biocomplexity Institute
Indiana University, Bloomington
Web Administration, Slack: James P. Sluka, PhD
Dept. of Intelligent Systems Engineering and Biocomplexity Institute
Indiana University, Bloomington
Activities Coordination: Bruce G. Shapiro, PhD, PMP
Laboratory for Systems Medicine
University of Florida
bruce.shapiro@medicine.ufl.edu
Slack Channel
https://Msm-working-group.slack.com
Our IMAG/MSM Wiki page
https://www.imagwiki.nibib.nih.gov/working-groups/multiscale-modeling-and-viral-pandemics Feel free to suggest additional content!
Or, use the Tiny URL: https://tinyurl.com/hkr97vfe
IMAG’s LinkedIn
YouTube “MSM Working Group on Multiscale Modeling” https://www.youtube.com/channel/UCuDFvhgFziRRDcpRnT3vlrw
Please follow the�group on Twitter!
If you could re-tweet the weekly announcements �(there are usually two, one for each speaker) �that would help boost attendance and community awareness.
Announcements
�Any short (~1 minute) items such as;
One Year Anniversary for the�MSM Viral Pandemics Working Group!
The VP WG’s inaugural teleconference was
Oct. 22, 2020
The first regular seminar teleconference was
November 5, 2020
Total number of seminars from invited speakers
86
Schedule for Upcoming Meetings and mini-Seminars
Nov 11:
Nov 18:
Nov 25: Thanksgiving Break
Dec 2:
Dec 9:
Request for future speakers (Dec 9, …)
Rules of the Meeting
Please mute your microphone and hold questions until after the presentations
Mini-Seminar� Multiscale modelling of malaria parasites
Ulrich Schwarz�Heidelberg University, GE
Malaria has been called the most devastating disease every experienced by mankind. Although today we have efficient drugs and even a first vaccine, it still kills around 400.000 people every year. Because the malaria parasite goes through so many different stages during its journey through the mosquito and human hosts, modelling efforts have to focus on specific aspects of high biological and medical relevance. Here we focus on the skin stage, when the parasite has the form of slender and crescent sporozoites. After release into the host skin during a mosquito blood meal, the malaria sporozoite quickly moves through the connective tissue in search of blood vessels. On a flat substrate, single cells follow circular trajectories with stick-and-slip motion. Using pillar arrays and agent-based computer simulations, we show how this circular motion is converted into different motion patterns that depend on the geometrical properties of the environment. We also study sporozoite movement in the context of large rotating collectives extracted from mosquito salivary glands. Quantitative image processing and agent-based modelling reveal that sporozoites are sorted in these vortices according to their curvatures and speeds, and that this phenomenon strongly depends on its mechanical flexibility. We conclude that this flexibility is an essential element for malaria sporozoites to move in mechanically challenging environments.
Mini-Seminar�The role of testing in COVID-19 control
Stanca Ciupe�Virginia Tech
�Vaccination is considered the best strategy for limiting and eliminating the COVID-19 pandemic. The success of this strategy relies on the rate of vaccine deployment and acceptance across the globe. As these efforts are being conducted, the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus is continuously mutating, which leads to the emergence of variants with increased transmissibility, virulence, and lower response to vaccines. One important question is whether surveillance testing is still needed in order to limit SARS-CoV-2 transmission in an increasingly vaccinated population. In this talk, I will present multi-scale mathematical models of SARS-CoV-2 transmission, and use them to determine the effects of vaccine uptake; surveillance testing with tests of different sensitivity, cost, testing frequency, and delay in test return; and testing strategies in limiting an outbreak with alpha and delta variants.
Requests for Input/Suggestions
We would like the subgroup leads to prepare brief presentations for the Thursday meetings, please let us know when you would like to present
Ideas/help for publicising our Thursday mini-seminars more effectively and for speakers to invite
Suggestions for agenda items and approaches to organizing the Steering Committee Meetings more effectively
There have also been a number of requests for more explicit statements of goals and tasks from the WG leadership, we would appreciate your suggestions
Please contact Reinhard Laubenbacher, James Glazier, James Sluka or Bruce Shapiro with your ideas on all of these issues
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Have you made new research contacts or collaborations based on the Viral Pandemics working group?
Additional Business
We ask that everyone sign up for subgroups using the Google Form at
https://forms.gle/Vf6RtapTeXfXLBaq6
People are welcome to post tools and software to IMAG/MSM website, but be careful to be clear that a posting does not include endorsement by NIH
Please register on IMAG/MSM web site https://www.imagwiki.nibib.nih.gov/index.php/�(Details are on the next slide)
Charge to subgroups�(review):
Deliverable: White paper on the subgroup focus areas.�Due date: February 26, 2021
Steps to be taken:
Should be added to the subgroup’s Wiki page
To register for the MSM�(Multiscale Modeling Consortium):
“Multiscale Modeling and Viral Pandemics”
If you have any problems please contact JSluka@iu.edu
Current Subgroup Updates
Subgroup Roll Call and Feedback
Subgroup leads quick check in (subgroup list on next slides):
Subgroups 1 of 2�(28 total subgroups)
Leads Names
Physiological Models
[Innate and Adaptive Immune Response] J Shoemaker, R Datta, V Zarnitsyna, E Schwartz
[Host-pathogen Interactions] Y Liu, J Thakar, W Garira
[Tissue Damage and Recovery] Y Jiang, K Ye
Virus Models
[Viral Transport and Modes of Entry and Barrier Functions] MG Forest
[Viral Replication and Release] J Faeder, P Rangamani, EY Kim
[Viral Evolution] F Adler, A Zilman
Therapeutics and Medicine
[Drug Development] R Stratford
[Vaccine Development] K Ye, E Schwartz
[Modeling individual responses to disease and treatment] G An, E Schwartz, T Mapder
[Modelling Decontamination of Surfaces/Materials] K Kiradjiev
[Machine Learning for Health Monitoring] G Lin, Y Jiang
Individual Organ Systems
[Lungs] Y Jiang
[Heart],[Vasculature] C Lynch
[Kidney and Liver] M Rafailovich, C Mazza, C Mahapatra, C Yedjou
[Comorbidities] J Barhak, G Gonzalez-Parra
Subgroups 2 of 2
Data
[Experimental and Clinical Data for Model Construction and Validation] S Schnell
[AI-based Data Processing, Heterogeneous Data Fusion] O Gevaert, Y Kevrekidis
[Infection in experimental models including Relationship between in vivo � and in vitro responses and Infection in vivo model organisms] tbd
[Infection in zoonotic reservoir animals and Interspecies Transmission] G An, J Rice, T Mapder
[Coinfection and/or other pathogens] H. Dobrovolny
[Emerging and Reemerging Diseases] A Gumel
Modeling Technology
[Aerosol Transport in Lung, Lymph and Blood] M Tawhai, C Darquenne
[Integration] ** J Barhak, R Bowness, Y Liu, R Thompson
[Knowledge Acquisition and Modeling] SMR Naqvi, J Thakar
[Crowd-sourcing Models] R Laubenbacher, P Macklin
[Model Standards, Credibility, and Annotation] J Barhak, R Sheriff
�Social Issues
[Dissemination, training and outreach to the public, � research community and Liaisons] T Helikar, B Madamanchi, J Rice
[Health Equity] *** B Madamanchi
[Dissemination and Communication to funding agencies] J Glazier, R Laubenbacher
** Merged two groups – � [Integration Within and Across Scales and challenges]
[Integration Between Within-host and Population Scales]
*** Merged
Please Sign Up For Subgroups!
Subgroup Sign up
We ask that everyone sign up for subgroups using the Google Form at:
https://forms.gle/Vf6RtapTeXfXLBaq6
�The form allows you to join a group and volunteer to lead. If you think subgroups overlap, feel free to sign up for multiple groups. We will likely combine some of the groups based on the number of participants and the number of people common across related groups.
Discussion of Recruitment of Subgroup Leads, Subgroup Members and WG Members
Procedure for the establishment of new subgroups:
New subgroup proposals should include a brief description of the focus, at least one person who has agreed to lead the subgroup, and a rationale why the proposed subgroup focus is not covered by already existing subgroups.