Previous CCB Workshops

About

An intense online, designed to help cell biologists and biophysicists to develop mathematical models of their experimental system. We will teach how to use VCell (https://vcell.org/), COPASI (https://copasi.org/ ) and SpringSalad (https://vcell.org/ssalad) software to develop spatial and non-spatial models using deterministic, stochastic, agent- and rule-based approaches. Please check the websites for extensive tutorials and examples of models. Organized by the Center for Cell Analysis and Modeling (CCAM) at the University of Connecticut School of Medicine (UConn Health).

Course Description

The course includes introductions to VCell, COPASI, and SpringSaLaD, presented by their developers and by modelers, followed by interactive hands-on sessions on designing your models, running simulations, and analyzing results. The number of course participants will be limited to allow for extensive one-on-one interactions with instructors and scientific disucssions among the participants. Instructors: Michael Blinov, Ann Cowan, Stefan Hoops, Leslie Loew, Pedro Mendes, Ion Moraru, Jim Schaff, and Boris Slepchenko.

How to Apply for the Course

Please email the following information to Dr. Michael Blinov blinov@uchc.edu, by June 30, 2024: your name, institution, lab head (if you are a student), and 1-2 page proposal outlining your research project and explaining how you feel VCell, COPASI, and/or SpringSaLaD will help it. This information will allow us to determine if our software is applicable to your project. As a NIH Biomedical Technology Resource, we are charged with supporting NIH-funded research through collaborative projects.

Additional Information

Registration is free and we will provide all meals. However, you will be responsible for travel and hotel costs. Limited travel funds are available to promote diversity, and we especially encourage individuals from minority-serving institutions to apply for funding.

Contact:

Tiffany Jespersen860-679-6103jespersen@uchc.edu

Funding provided by NIH Grant R24 GM137787.

About

An intense online, designed to help cell biologists and biophysicists to develop mathematical models of their experimental system. We will teach how to use VCell (https://vcell.org/), COPASI (https://copasi.org/ ) and SpringSalad (https://vcell.org/ssalad) software to develop spatial and non-spatial models using deterministic, stochastic, agent- and rule-based approaches. Please check the websites for extensive tutorials and examples of models. Organized by the Center for Cell Analysis and Modeling (CCAM) at the University of Connecticut School of Medicine (UConn Health).

Course Description

The course includes introductions to VCell, COPASI, and SpringSaLaD, presented by their developers and by modelers, followed by interactive hands-on sessions on designing your models, running simulations, and analyzing results. The number of course participants will be limited to allow for extensive one-on-one interactions with instructors and scientific disucssions among the participants. Instructors: Michael Blinov, Ann Cowan, Stefan Hoops, Leslie Loew, Pedro Mendes, Ion Moraru, Jim Schaff, and Boris Slepchenko.

How to Apply for the Course

Please email the following information to Dr. Leslie Loew, les@uchc.edu, and Dr. Michael Blinov blinov@uchc.edu, by January 28: your name, institution, lab head (if you are a student), and 1-2 page proposal outlining your research project and explaining how you feel VCell, COPASI, and/or SpringSaLaD will help it. This information will allow us to determine if our software is applicable to your project. As a NIH Biomedical Technology Resource, we are charged with supporting NIH-funded research through collaborative projects.

Additional Information

Registration is free and we will provide all meals. However, you will be responsible for travel and hotel costs. Limited travel funds are available to promote diversity, and we especially encourage individuals from minority-serving institutions to apply for funding.

Contact:

Karen Zucker860-679-1452zucker@uchc.edu

Funding provided by NIH Grant R24 GM137787.

About

An intense in-person, hands-on course is designed to help cell biologists and biophysicists to develop mathematical models of their experimental system. We will teach how to use VCell (https://vcell.org/), COPASI (https://copasi.org/ ) and SpringSalad (https://vcell.org/ssalad) software to develop spatial and non-spatial models using deterministic, stochastic, agent- and rule-based approaches. Please check the websites for extensive tutorials and examples of models. Organized by the Center for Cell Analysis and Modeling (CCAM) at the University of Connecticut School of Medicine (UConn Health).

Course Description

The course includes introductions to VCell, COPASI, and SpringSaLaD, presented by their developers and by modelers, followed by interactive hands-on sessions on designing your models, running simulations, and analyzing results. The number of course participants will be limited to allow for extensive one-on-one interactions with instructors and scientific disucssions among the participants. Instructors: Michael Blinov, Ann Cowan, Stefan Hoops, Leslie Loew, Pedro Mendes, Ion Moraru, Jim Schaff, Boris Slepchenko.

How to Apply for the Course

Please email the following information to Dr. Michael Blinov, blinov@uchc.edu, by May 17: your name, institution, lab head (if you are a student), and 1-2 page proposal outlining your research project and explaining how you feel VCell, COPASI, and/or SpringSaLaD will help it. This information will allow us to determine if our software is applicable to your project. As a NIH Biomedical Technology Resource, we are charged with supporting NIH-funded research through collaborative projects.

Additional Information

Registration is free and we will provide all meals. However, you will be responsible for travel and hotel costs. Limited travel funds are available to promote diversity, and we especially encourage individuals from minority-serving institutions to apply for funding.

Contact:

Karen Zucker860-679-1452zucker@uchc.edu

The 24th Annual Workshop on Computational Cell Biology will be sponsored by the Center for Cell Analysis and Modeling, (CCAM) at the University of Connecticut School of Medicine on February 13 – 15, 2023. It will be an intense online event designed to enable cell biologists and biophysicists to develop models of their experimental system using Virtual Cell, COPASI, and SpringSaLaD software systems. The workshop will include a combination of plenary sessions and breakout sessions for one-on-one model building. For pre-selected participants, we will provide “hands-on” help developing models in support of their individual research. Through the 3 days, there will be opportunities for participants to describe their own modeling projects.

A separate in-person workshop is being planned for June 26 – 28, 2023, in Farmington, CT. More details regarding this event will follow.

The workshop is free. However, to be admitted please email the following information to les@uchc.edu by January 13:
  1. Which of the software systems will be of immediate value in your research:
    1. COPASI
    2. Virtual Cell
    3. SpringSaLaD
  2. Are you:
    1. A novice at modeling who can benefit from general introductions to kinetic and reaction-diffusion systems?
    2. An experienced modeler interested in advanced topics?
  3. Do you have a modeling project that you would like to work on with our help? If so, please send us a short (~ 1 page) description of your project explaining the research question you wish to address and how modeling can help. This will allow us to determine if the current implementations of the Virtual Cell, COPASI, or SpringSaLaD are applicable to your project.
  4. VCell and COPASI support many advanced modeling techniques. Please list any such approaches you may be interested in learning more about.

Keynote Speakers

Jason Haugh

North Carolina State University

Pablo Iglesias

Johns Hopkins

Ursula Kummer

University of Heidelberg

Funding provided by NIH Grant R24 GM137787.