Mechanistic modelling in bioprocess engineering: from theory to application
Hybrid event
OBJECTIVES
In this 4-day training school, attendees will explore and learn about the intricacies of mechanistic modelling for microbial cultivations. The course will cover the principles of describing microbial cultivations using biological reaction rate models, including selecting an initial model structure and determining model parameter values using example datasets. Through case studies and hands-on exercises, participants will gain a deeper understanding of these concepts and improve their ability to predict and optimize microbial cultivation processes for real-world applications in their research.
COURSE LECTURERS
- Krist V. Gernaey, Professor and Head of Center at PROSYS, DTU KT
- Carina L. Gargalo, Researcher at PROSYS, DTU KT
- Alina Malanca, PostDoc at PROSYS, DTU KT
- Mariana Albino, PhD student at PROSYS, DTU KT
- Rosa Haßfurther, PhD student at KIWI-biolab, TU Berlin
- Elham Ramin, Researcher at PROSYS, DTU KT
- Mads Stevnsborg, Software Manager at AT-Cere, DTU KT
- Francisca S. Braga, PhD student at PROSYS, DTU KT
- Pedram Ramin, Senior Researcher at DTU KT
- Adem Aouichaoui, PostDoc at Section for Autonomous Materials Discovery, DTU Energy
- Michaël Pierrelée, PostDoc at DTU Sustain
- Peter Jul-Rasmussen, PhD student at PROSYS, DTU KT
- Fiammetta Cacavalle, PostDoc at PROSYS, DTU KT
- Nico Cruz, Leader of KIWI-biolab, TU Berlin
PROGRAM
Mechanistic modelling in bioprocess engineering: from theory to application
31st March – 3 April 2025 – (CET Time)
Day 1 – Module 1
March 31, 2025 (CET Time)
09:00 Registration
09:15 Introduction, course objectives, agenda & expectations
09:30 The Grand Picture: The importance of microbial cultivations & mechanistic modelling
10:45 Coffee break
11:00 Key Growth Phases & Parameters
11:30 Hands-on 1
12.15 Lunch (faculty canteen)
13:30 Intro to Bioreaction Rate Models
14:15 Python – a refresher
14:50 Coffee break
15:00 Hands-on 2
15:45 Wrap-up and Q&A
Day 2 – Module 2
April 1, 2025 (CET Time)
09:00 Incorporating inhibition kinetics, modeling mixed cultures
10:45 Coffee break
11:00 Model Selection & Experimental Design
12.15 Lunch (faculty canteen)
13:30 Comparing data driven and knowledge driven modeling of bioprocesses
14:15 Parameter estimation
15:00 Coffee break
15:15 Hands-on 3
15:45 Wrap-up and Q&A
Day 3 – Module 3
April 2nd, 2025 (CET Time)
09:00 Model Validation, Sensitivity and Uncertainty Analyses
10:00 Hands-on 4
10:45 Coffee break
11:00 Stochastic modeling of fed-batch E. Coli fermentation with recombinant protein production
12.15 Lunch (faculty canteen)
13:30 From biomodels to biosimulator: workshop
15:00 Coffee break
15:45 Wrap-up and Q&A
Day 4 – Module 4 – Advanced topics, future directions & case studies
April 3rd, 2025 (CET Time)
09:00 Optimizing wastewater management with mathematical models
10:00 Enhancing Water Treatment with Metabolic Modeling of Microbial Communities
10:45 Coffee break
11:00 Data validation and fault detection methods
12.15 Lunch (faculty canteen)
13:30 Hybrid Modeling for Process Systems Simulation – Integrating Process Understanding and Machine Learning
14:30 Coffee break
14:45 Parameter estimation – advanced example
15:45 Wrap-up and Q&A