For more information, please see our announcement at https://compucell3d.org/Workshop21
To register, please visit: www.tinyurl.com/557ve5se
AUDIENCE: Mathematical Biologists, Computational Biologists, Experimental Biologists, Medical Scientists and Biophysicists, from undergraduates to senior faculty, with a current or potential interest in mechanistic modeling of biological systems. The course covers multicellular modeling, which applies to developmental and tissue biology, tissue engineering, developmental diseases like cancer, in-host modeling of infection and immune response and tissue-level toxicology. No specific programming or mathematical experience is required.
Summer school attendance guarantees admission to the Model-Building Hackathon.
The Hackathon will group attendees by topic of interest. Experienced modelers will be embedded within each group. Everyone will leave with a functioning core model that they can further customize. Advanced modelers can apply to attend just the Hackathon.
AIM AND FOCUS:
An Introductory Python and Principles of Modeling Tutorial will take place on August 1st, 2021. If you already know Python or have modeling experience, you may skip this Tutorial or take this material as a review
Multicell Virtual-Tissue Modeling Summer School (August 2nd - August 6th, 2021) and Hackathon (August 7th -August 8th, 2021):
Mechanistic modeling is an integral part of contemporary bioscience, used for hypothesis generation and testing, experiment design and interpretation and the design of therapeutic interventions. The CompuCell3D modeling environment allows researchers with modest programming experience to rapidly build and execute complex Virtual Tissue simulations of development, homeostasis, toxicity and disease in tissues, organs and organisms, covering sub-cellular, multi-cell and continuum tissue scales. Virtual-Tissue simulations developed using CompuCell3D run on Windows, Mac and Linux and on-line via the nanoHUB CompuCell3D deployment (https://nanohub.org/tools/cc3dbase4x). CompuCell3D is open source, allowing users to extend, improve, validate, modify and share the core software. By the end of the Summer School and Hackathon, participants will have implemented a basic simulation of their particular biological problem of interest. Post-course support and collaboration will be available to continue simulation development.
The summer school will include five days of lectures and hands-on computer tutorials. In the modeling Hackathon teams of advanced and beginner modelers will develop research-quality models of their systems of interest. Each attendee will also present a mini-talk on their problem of interest. We will provide after-hackathon support to assist users in the development of these models in their research.
Principles of modeling biological and biomedical problems
Python and Antimony scripting
Multicellular Virtual-Tissue simulations with CompuCell3D
Combining network models with virtual-tissue models in multiscale models
Prof. Julio Belmonte (North Carolina State University), Mr. Juliano Gianlupi (Indiana University), Prof. James A. Glazier (Indiana University), Prof. Bobby Madamanchi (University of Michigan), Dr. T.J. Sego (Indiana University, CompuCell3D lead developer), Dr. James Sluka (Indiana University), Dr. Endre Somogyi (Indiana University, Tellurium lead developer), Dr. Maciek Swat (CompuCell3D lead developer), Prof. Gilberto Thomas (Federal University of Rio Grande do Sul, Brazil)
Because the number of places is limited, admission is by application only. To apply for admission, please visit the school website www.compucell3d.org or email firstname.lastname@example.org
DEADLINE for APPLICATIONS:
June 1st, 2021. Applications will be processed as received.
The workshop is partially supported by grants from the US National Institutes of Health. Enrollment is free.
James A. Glazier
Department of Intelligent Systems Engineering
Indiana University, Bloomington
The course is part of the Intensive Research Program (IRP) on Dynamical Systems in Biology, organized from June to October 2021 at CRM/www.crm.cat/irp_dyns3bio/
The Advanced Course will be held ON-SITE and ONLINE via Zoom at the same time due to the current COVID-19 epidemiological situation.
Registration deadline: 25 / 07 / 2021
THE HELSINKI SUMMER SCHOOL ON MATHEMATICAL ECOLOGY AND EVOLUTION 2022
We are glad to invite applications to the 2022 edition of The Helsinki Summer School on Mathematical Ecology and Evolution, an EMS-ESMTB School in Applied Mathematics to be held between 21 and 28 August 2022 in Turku, Finland.
The core program consists of five series of lectures:
Josef Hofbauer (University of Vienna): Dynamical systems in mathematical ecology
Julia Gog (University of Cambridge): The mathematics of infectious diseases
Pieter Trapman (Stockholm University): Stochastic models of epidemics
Jarno Vanhatalo (University of Helsinki): Linking ecological models to data through Bayesian statistics
Christian Hilbe (Max Planck Institute for Evolutionary Biology): Dynamics of social behaviour
All young researchers working in mathematical ecology can apply from all countries, especially from Europe and the Mediterranean. The school is aimed at graduate students of mathematics, but we also welcome students of biology with sufficient background in mathematics, as well as advanced undergraduates and postdocs.
For more information and details of the application procedure, please visit the school's webpage
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