BioDynaMo collaboration

Dear all,  as we are approaching the end of 2024, we would like to take a moment to reflect on our collaborative achievements within the BioDynaMo community. It has been a year marked by innovation, resilience, and shared commitment to advancing our understanding of various biological systems through innovative computational modelling. This year, the consortium had several important successes. We would like to specifically mention/highlight: The paper presenting BioDynaMo’s application to cancer treatment. Radiation-induced fibrosis is a major risk factor in radiotherapy for lung cancer patients. BioDynaMo members including our Nicolo as first author published in the very prestigious Nature Communications Medicine journal, showing how BioDynaMo can be used to simulate the impact of radiation on the lung on a single cell level. Such modelling can be used to improve radiotherapy: https://www.nature.com/articles/s43856-024-00442-w Also in the domain of oncology, a study leve...

 Last December the 12th Physics World has delighted announced its Top 10 Breakthroughs of the Year for 2024, which includes research in nuclear and medical physics, quantum computing, lasers, antimatter and (of course ^_^) BioDynaMo . The Top Ten is the shortlist for the Physics World Breakthrough of the Year, which will be revealed on Thursday 19 December. PhysicsWorld editorial team has looked back at all the scientific discoveries reported on since 1 January and has picked 10 they judge are the most important. In addition to being reported in Physics World in 2024, the breakthroughs must meet the following criteria:  Significant advance in knowledge or understanding Importance of work for scientific progress and/or development of real-world applications Of general interest to Physics World readers  You can listen to the editors making their case for the research in the Top10 in this podcast What do they say about the BioDynaMo research they selected: <<Modelling...

 On Monday, November 11, 2024, Lukas successfully defended his thesis work, “ Design and Analysis of an Extreme-Scale, High-Performance, and Modular Agent-Based Simulation Platform ” 👏 The core contributions of Lukas’s thesis work are: BioDynaMo significantly reduces the simulation runtime, enabling larger and more complex simulations, faster iterative development, and more extensive parameter exploration. Specifically, BioDynaMo can: simulate 500 billion agents (a 84x improvement over the state-of-the-art), scale to 84’096 CPU cores, significantly reduce the simulation time (e.g., BioDynaMo simulates an iteration of 800 million agents in 0.6 s instead of 5 s), and significantly increases the visualization performance by 39x.

 Not long ago we had advertised a vacancy at CERN to join our collaboration -> link Despite receiving a great response, we failed to meet the right profile (all had great talents, but the acceptable experience accumulated after University degree is a hard requirement), and we are does readvertising the vacancy! Are you a Computer Scientist (or from a related field) and have obtained either: your Master's degree with 2 to 6 years of post-graduation professional experience; or your PhD with no more than 3 years of post-graduation professional experience? Would you say you honed excellent skills in the C++ programming language and have a keen interest in agent-based simulations solutions and computational biology? Are you a national of a CERN Member or Associate Member State? We are looking for you! Apply to join our team and gain experience in one of the most thriving and exciting laboratories in the world!!! https://jobs.smartrecruiters.com/CERN/743999964172854-agent-based-digita...

 We are very excited to announce that our scientific dream team ( Nicolò Cogno , Cristian Axenie ,  Roman Bauer , and Vasileios Vavourakis ) have published a masterpiece review on the topic of " Agent-based modeling in cancer biomedicine: applications and tools for calibration and validation "  They focused on collecting and organizing relevant literature exploring strategies to leverage high-fidelity simulations of multi-scale, or multi-level, cancer models with a focus on verification approached as simulation calibration. The review then culminates in an outline of modern approaches for agent-based models’ validation providing an ambitious outlook toward rigorous and reliable calibration. Learn more by downloading the full text here

Would you like to conduct fundamental and/or applied research on “Brain Neuronal Networks Development via Multiscale Agent-based Modelling"? Don't miss this "Special Scientist - Post-Graduate Researcher (Research Assistant)" vacancy at the University of Cyprus, funded by the Foresight Institute   A great opportunity to join the # BioDynaMo team and work with Roman Bauer and Vasileios Vavourakis Project description : In this project, REASON, we will demonstrate an innovative computational approach to model and emulate biological NNs: rather than directly modelling a brain with all its complexity, we will model NN development from a single precursor cell. In other words, by leveraging the same approach that nature uses to build brains, we aim to reproduce challenging neural complexities. Inspired by the biological brain, we will make use of developmental rules that are encoded in a gene-type manner. For instance, a rule could be that a given neural stem cell should ...