ycliper

James Glazier

Mathematical Biology

Computational Biology

Virtual Tissues

Developmental Biology

Reaction Kinetics

Indiana University

Biological Networks

Multicellular Modeling

Digital Twins

Personalized Medicine

This channel includes videos about multiscale modeling in biomedical research. It includes Indiana University course videos bu James Glazier and collaborators on the use of the Tellurium Environment to construct and solve dynamic network models of gene-regulatory, metabolic and signaling networks as well as population models of epidemiology. It includes extensive Indiana University course lectures on the use of the CompuCell3D virtual-tissue modeling environment to simulate developmental biology, cancer and in-host viral infection and immune response. It also includes research lectures applying these methods. Finally, it includes videos of the Interagency Modeling and Analysis Group Working Group on Multiscale Models and Viral Pandemics, which include short seminars by major researchers working in the area of modeling and infectious diseases.

E340/542 Network Modeling, Lecture 8, Stability Theory [Rita de Almeida] October 22, 2024

E340/542 Network Modeling, Lecture 3 Chemical Reactions [Pedro dal Castel] September 10, 2024

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CC3D WS 4.3.4: Wing Planar Polarity [Abhisha Thayambath] August 1, 2024

CC3D WS 5.3.3: Lung Adenocarcinoma Model, Connecting CC3DML and Python [James Sluka] August 2, 2024

CC3D WS 4.3.3: Introduction to Tissue Forge [T.J. Sego] August 1, 2024

CC3D WS 4.3.2: Muscle Regeneration and Estrogen Model [Megan Haase] August 1, 2024

CC3D WS 5.3.2: Engineering Synthetic Biology [Calvin Lam] August 2, 2024

CC3D Workshop 2024: Conda-only installation of CompuCell3D Tutorial [July 24]

2024 CompuCell3D Virtual Tissue Training Workshop: Orientation Session 2 [July 18, 2024]

WG/GLIMPRINT Seminars: Roberts, Modeling Eye Diseases, June 27th, 2024

CompuCell3D Virtual Tissue Modeling Workshop 2024: Orientation Session 1 [July 1st, 2024]

WG/GLIMPRINT Seminars: Getz, Virtual Cornea, May 30th, 2024

Tissue Forge Introductory Lecture, TJ Sego, March 6, 2024

Developing CompuCell3D, Advanced Topics: Generating a Wizard Page Programmatically

WG/GLIMPRINT Seminars: Zhang, Digital Twins and ML, December 14, 2023

Discussion: probability flux to estimate 2D or 3D interface curvature in CPM/GGH - Maciej and Pedro

Developing CC3D - Debugging code and pushing to CC3D Github - Maciej

Using Qt Designer to Develop Wizard Pages for CompuCell3D Part 2 - Maciej

Using Qt Designer to Develop Wizard Pages for CompuCell3D - Maciej

Python Classes - Review and Exercise - Standalone Course

Breaking Barriers in Multiscale Agent-Based Models: A Path for Cross-Platform Models, October 6 2023

Challenges and Opportunities in Sharable Virtual Tissue Model Specification, October 6, 2023

WG/GLIMPRINT Seminars: Veschini, Advancing Personalized Cancer Diagnosis, October 5, 2023

Python Basics - Classes - Standalone Course

CompuCell3D WS Module 8.3.3 Julio Belmonte August 11 2023

CompuCell3D WS Module 9.3.2 Adhesion Flex [Gilberto Thomas] August 11 2023

Breaking Barriers in Multiscale Agent-Based Models A Path for Cross-Platform Validation July 25 2023

WG/GLIMPRINT Seminars: Yankeelov, Cancer Digital Twins, July 6, 2023

WG Seminars: Digital Twins Subgroup, Moore, Evaluation Framework for Systems Models, March 10, 2023