News and Events


Topological Data Analysis in Biomedicine: A Review

Significant technological advances made in recent years have shepherded a dramatic increase in utilization of digital technologies for biomedicine– everything from the widespread use of electronic health records to… 



Student Research Symposium

May 10, 2022 • 4:00 – 5:30

Cardiology Conference Room, Laboratory for Systems Medicine



Self-reporting of psychiatric illness in an online patient registry is a good indicator of the existence of psychiatric illness

Online registries offer many advantages for research, including the ability to efficiently assess large numbers of individuals and identify potential participants for clinical trials and genetic studies.



Multi-scale mechanistic modelling of the host defence in invasive aspergillosis reveals leucocyte activation and iron acquisition as drivers of infection outcome

Aspergillus species are ubiquitous environmental moulds, with spores inhaled daily by most humans.


Oral Presentation

The innate immune response to respiratory fungal pathogens: A multi-scale modeling approach

On April 9 at 9:00, Reinhard Laubenbacher will present a paper to the AMS Special Session on Current Advances in Computational Biomedicine at the Virtual 2022 Joint Mathematics Meetings.



The Dynamics of Boolean Networks

On April 11 at 16:00, Reinhard Laubenbacher will present to the Texas A&M University Mathematics colloquium.


2022 Sue Geller Undergraduate Lecture

Medical Digital Twins: Mathematics for 21st Century Medicine

On April 12 at 18:00, Reinhard Laubenbacher will deliver the 2022 Sue Geller Undergraduate Lecture at Texas A&M University.


Oral Presentation

Post-Transplant Disparities Amongst Sarcoidosis-Indicated Lung Recipients

On Wednesday, May 18, Cory Brunson will give an oral presentation in a mini-symposium on Advances in Pre- and Post-Lung Transplant Care: From Selection to CLAD at the American Thoracic Society International Conference in San Francisco, CA.



Toward Tidy Principles For Matrix-Decomposed Data

On August 6–11, Cory Brunson will present at a Statistical Graphics section on graphing multivariate data at the Joint Statistical Meetings in Washington, DC.


April 8, 2022 @ 11:00

AMS Special Session on Mathematical Models for Biomolecular and Cellular Interactions

Organizers: Daniel Alejandro Cruz, Margherita Maria Ferrari

Forum: Joint Mathematics Meetings

When: April 8, 2022



The Impact of ACEs on BMI: An Investigation of the Genotype-Environment Effects of BMI

Adverse Childhood Experiences are stressful and traumatic events occurring before the age of eighteen shown to cause mental and physical health problems, including increased risk of obesity. Obesity remains an ongoing national challenge with no predicted solution. We examine…



Aspergillus utilizes extracellular heme as an iron source during invasive pneumonia, driving infection severity

Depriving microbes of iron is critical to host defense. Hemeproteins, the largest source of iron within vertebrates, are abundant in infected tissues in aspergillosis due to hemorrhage, but Aspergillus species have been…


Recent News

Medical Digital Twins: a New Frontier

Last year, a new product for the treatment of type-1 diabetes came on the market: a “digital twin” of the human pancreas. The patient is outfitted with a bloodstream sensor and an insulin pump. The sensor continuously sends data about insulin levels to a device that looks a bit like a cellphone and that runs a mathematical model of glucose metabolism.

Medical Digital Twins

Recent Publication

Computational models in systems biology: standards, dissemination, and best practices

Mathematical and computational models are a key technology in systems biology. Progress in the field depends on the replicability and reproducibility of their properties and behavior. For this, an essential requirement is a set of clear…


Recent Presentation

Steady Cell Phenotype: A web-based tool for the modeling of biological networks with ternary logic

We introduce Steady Cell Phenotype, a browser based interface for the analysis of ternary biological networks. It includes tools for deterministically finding all steady states of a network…


Recent Publication

Evaluation Framework for Systems Models

As decisions in drug development increasingly rely on predictions from mechanistic systems models, assessing the predictive capability of such models is becoming more important. Several frameworks for the development of quantitative systems pharmacology (QSP) models have been proposed. In this paper…


Seminar Presentation

Microbes and Human Health: A Computational Modeling Perspective

Reinhard Laubenbacher gave a talk on Microbes and human health: a computational modeling perspective in the Seminar Series of the UF College of Dental Medicine Oral Biology Department.


Recent Publication

Dramatic Transcriptomic Differences in Macaca Mulatta and Macaca Fascicularis with Plasmodium Knowlesi Infections

Plasmodium knowlesi, a model malaria parasite, is responsible for a significant portion of zoonotic malaria cases in Southeast Asia and must be controlled to avoid disease severity and fatalities.



Optimization of Agent-Based Models Through Coarse-Graining

Optimization and control are important objectives across biology and biomedicine, and mathematical models are a key enabling technology. This paper reports a computational study of model-based multi-objective optimization in the setting of microbial ecology, using agent-based models. This modeling framework is well-suited to the field, but is not…



The Why and How of Manuscript Review: What Goes Around Comes Around

Aside from conducting research itself, communicating it to the broader mathematical sciences community—as well as the general public—is the most important task that a researcher must accomplish, for the sake of progress within both the mathematical sciences and one’s own career…



Helen Moore Interview

Helen Moore was Associate Director of Quantitative Clinical Pharmacology, Bristol-Myers Squibb in Princeton, New Jersey and recently joined UF as an Associate Professor in the Laboratory for Systems Medicine.

Helen Moore Interview



Reinhard Laubenbacher presented a talk at the weekly meeting of the multiscale modeling and viral pandemics working group. The title of his talk was “A modular computational framework for medical digital twins.”



American Thoracic Society

Luis Sordo Vieira presented a poster presentation at the American Thoracic Society Annual Meeting Titled Discerning the Division of Labor of Monocyte Derived Immune Cells in Invasive Aspergillosis



Society for Biological Psychiatry

Luis Sordo Vieira presented a poster at the Society for Biological Psychiatry Annual Meeting titled “Comorbidity Patterns in Hoarding Disorder”



Society for Mathematical Biology

Luis Sordo Vieira co-organized a mini symposium centered around the leading mathematical models of pulmonary immune responses to pulmonary insults at the Society for Mathematical Biology Annual Meeting.



Society for Mathematical Biology

Henrique de Assis Lopes Robeiro presented at talk at the “SMB Minisymposium: The pressing need for within-host models of the pulmonary immune response.” The title of his presentation was: “Computational Modeling Reveals the Role of Macrophages in Respiratory A. fumigatus Infection in Immunocompromised Hosts.”



Featured Publication – “A Modular Computational Framework for Medical Digital Twins”

This paper presents a modular software design that will help implement precision medicine in the form of medical digital twins which are computational models of disease processes calibrated to individual patients.


Recent Publication

Using Digital Twins in Viral Infection

Reinhard Laubenbacher, co-authored an article, Using Digital Twins in Viral Infection,  in Science Magazine along with  James P. Sluka, and…



Grand Rounds – Department of Medicine – University of Florida

May 27th, 2021



AAAS Scientific Symposium – The Mathematics of Homeostasis and Health

AAA Annual Meeting, February 2021



The Mathematics of Homeostasis and Health



Working Group on Multiscale Modeling and Viral Pandemics

Coronavirus disease COVID-19 infection medical. New official name for Coronavirus disease named COVID-19, pandemic risk on world map background