Technical Program for COBRA 2024
All times listed in PST
Start | End | Duration | Event |
Day 1 - Thursday, October 24 | |||
8:00 AM | 9:00 AM | 1:00 | Registration (Open all day) |
9:00 AM | 9:10 AM | 0:10 | Chair's Introduction - Bernhard Palsson |
Session 1: Human Health | |||
9:10 AM | 9:45 AM | 0:35 |
Keynote: Adil Mardinoglu, KTH Royal Institute of Technology: |
9:45 AM | 10:05 AM | 0:20 |
Bram Nap, University of Galway:"We Are What We Eat: A Nutrition Toolbox Permits in silico Analysis and Optimization of Personalized Diets through Metabolic Modeling" |
10:05 AM | 10:25 AM | 0:20 | Sunayana Malla, University of Nebraska-Lincoln: Dissecting Metabolic Landscape of Alveolar Macrophage |
10:25 AM | 10:45 AM | 0:20 | Coffee Break |
10:45 AM | 11:20 AM | 0:35 | Invited Speaker: Anu Raghunathan, NCL India |
11:20 AM | 11:40 AM | 0:20 |
Christopher S. Henry, Argonne National Laboratory: Understanding Uncertainty in Model Reconstruction to Produce Insights into Metabolic Progression in the Gut Microbiome |
11:40 AM | 12:00 PM | 0:20 |
Igor Marín de Mas, Copenhagen University Hospital: Algorithm-Aided Protocol for Constructing Highly Curated Genome-Scale Models of Human Metabolism |
12:00 PM | 1:30 PM | 1:30 | Lunch |
Session 2: Chronic Diseases | |||
1:30 PM | 2:05 PM | 0:35 | Keynote: Ronan Fleming, University of Galway: Variational Kinetic Modelling of Inherited Metabolic Diseases |
2:05 PM | 2:25 PM | 0:20 |
Tahereh Razmpour, University of Nebraska-Lincoln: "Integrating Transcriptomics Data, Genome-Scale Metabolic Modeling, and Machine Learning to Elucidate Metabolic Vulnerabilities and Biomarkers in Pancreatic Cancer" |
2:25 PM | 2:45 PM | 0:20 | Tim Hensen, University of Galway: In silico Modelling Links Microbiome-Derived Metabolites to Risk Factors for Alzheimer's Disease |
2:45 PM | 3:05 PM | 0:20 | Coffee Break |
3:05 PM | 3:40 PM | 0:35 | Invited Speaker: Lutfu Safak Yilmaz, University of Massachusetts Chan Medical School |
3:40 PM | 4:10 PM | 0:20 |
Amit Ghosh, Indian Institute of Technology Kharagpur: Genome Scale-Differential Flux Analysis to Understand Metabolic Deregulation in Lung Cell Post Sars-Cov2 Infection |
4:10 PM | 4:30 PM | 0:20 |
Daniel Fässler, University Medicine Greifswald: Integrating Genome-Wide Statistical Screenings and Constraint-Based Modeling to Understand Gene-Metabolite Relations Via Microbiome-Personalized Whole Body Models |
5:00 PM | 7:00 PM | 2:00 | Reception |
Day 2 - Friday, October 25 | |||
8:00 AM | 9:00 AM | 1:00 | Registration (Open all day) |
9:00 AM | 9:10 AM | 0:10 | Chair's Summary of Previous Day |
Session 3: Microbial Communities | |||
9:10 AM | 9:45 AM | 0:35 | Keynote: Sean Gibbons, Institute of Systems Biology |
9:45 AM | 10:05 AM | 0:20 | Helen Scott, Boston University - "A Model-Based Approach to Understanding Microbial Carbon Use Efficiency" |
10:05 AM | 10:25 AM | 0:20 | Juan Bonilla, UCSD - "Metabolism and Gene Expression Models Unravel the Effect of Diet and Metabolic Dysbiosis of the Gut Microbiome on Disease" |
10:25 AM | 10:45 AM | 0:20 | Coffee Break |
10:45 AM | 11:05 AM | 0:20 |
Nantia Leonidou, Institute for Bioinformatics and Medical Informatics (IBMI) - "Integrative Metabolic Modeling: From Human Nasal Microbiome to Antiviral Target Prediction in the Respiratory Tract" |
11:05 AM | 11:25 AM | 0:20 | Parsa Ghadermazi, Colorado State University - "Predicting Microbial Interactions Using a Novel Reinforcement Learning Algorithm" |
11:25 AM | 11:45 AM | 0:20 |
Gracelyn Richmond, Albert Einstein College of Medicine - "An Integrative in vitro and in silico Platform for Studying Microbial Community Metabolic Dynamics" |
12:00 PM | 1:30 PM | 1:30 | Lunch |
Session 4: Microbial Pathogens | |||
1:30 PM | 2:05 PM | 0:35 |
Keynote: Paul Jensen, University of Michigan: |
2:05 PM | 2:25 PM | 0:20 | Nabia Shahreen, U of Nebraska-Lincoln - "Metabolic Adaptations and Overflow Metabolism in Staphylococcus Aureus and Neisseria Gonorrhea" |
2:25 PM | 2:45 PM | 0:20 |
Denis Joly, Laboratory of Computational Systems Biotechnology (LCSB), Swiss Federal Institute of Technology (EPFL) - "Less Is More: Efficient Modelling of Cell-Cell Metabolic Interactions Via Minimal Operational Physiological Units (MOPhUs)" |
2:45 PM | 3:05 PM | 0:20 | Coffee Break |
3:05 PM | 3:25 PM | 0:20 |
Janaka N. Edirisinghe, Argonne National Laboratory - "Bridging the Gap: Integrating Diverse Fungal Models and Energy Biosynthesis Strategies for Enhanced Understanding of Microbial Ecophysiology" |
3:25 PM | 3:45 PM | 0:20 |
Kalani Paranagama, School of Translational Medicine, Monash University - "Metabolic Diversity of Klebsiella Pneumoniae and Association with Ecological Niche" |
3:45 PM | 4:05 PM | 0:20 | Emma Glass, University of Virginia - "Evolution Shapes Metabolic Function and Niche-Specific Antimicrobial Targets in Pathobionts |
5:00 PM | 7:00 PM | 2:00 | Poster Session |
Day 3 - Saturday, October 26 | |||
8:00 AM | 9:00 AM | 1:00 | Registration (Open all day) |
9:00 AM | 9:10 AM | 0:10 | Chair's Summary of Previous Day |
Session 5: Biomanufacturing | |||
9:10 AM | 9:45 AM | 0:35 | Keynote: Huimin Zhao, University of Illinois Urbana-Champaign Exploring a Data-driven Research Paradigm for Synthetic Biology |
9:45 AM | 10:05 AM | 0:20 | Harish Nagarajan, Genomatica - "Data-driven design and development of commercial and scalable cell factories" |
10:05 AM | 10:25 AM | 0:20 | Aziz Ben Ammar, RWTH Aachen University - Building a Sustainable Protein Factory: A Genome-Scale Model of Xanthobacter Sp. SoF1 |
10:25 AM | 10:45 AM | 0:20 | Coffee Break |
10:45 AM | 11:05 AM | 0:20 |
Samira van den Bogaard, RWTH Aachen University - Learning More from Data: Extending Metabolic Models with Concepts of Resource Allocation on the Protein and Transcript Level |
11:05 AM | 11:25 AM | 0:20 |
Benjamin Strain, Imperial College London - Integrating Industry Leading Datasets with Genome Scale Metabolic Models to Direct Chinese Hamster Ovary (CHO) Cell Metabolic Engineering. |
11:25 AM | 11:45 AM | 0:20 | Daniel Zielinski, University of California - The Metabolic Potential of Soluble Quinone-Mediated Extracellular Electron Transfer |
11:45 AM | 1:15 PM | 1:30 | Lunch |
Session 6: Biosustainability | |||
1:15 PM | 1:50 PM | 0:35 | Keynote Speaker: BK Cho, KAIST |
1:50 PM | 2:10 PM | 0:20 | Sophie Zhu, University College London - Modelling of Microbial Communities with Non-Model Organisms for Bioprocess Development |
2:10 PM | 2:30 PM | 0:20 |
Evangelia Vayena, Swiss Federal Institute of Technology (EPFL) - In silico Functional Comparison of the Leaf Microbiome By Reducing Metabolic Complexity |
2:30 PM | 2:50 PM | 0:20 | Coffee Break |
2:50 PM | 3:10 PM | 0:20 |
Ljubisa Miskovic, Laboratory of Computational Systems Biotechnology (LCSB), Swiss Federal Institute of Technology (EPFL) - Generative Machine Learning for High-Throughput Dynamic Studies of Metabolism |
3:10 PM | 3:30 PM | 0:20 | Parizad Babaei, Novonesis - Sustainable Production of Nutritious Protein from CO2 using Fungal Cell Factories |
3:30 PM | 3:50 PM | 0:20 |
Rana A. Barghout, University of Toronto - Kingems: Advancing Enzyme-Constrained Genome-Scale Models with Deep Learning Predicted Kinetic Parameters |
3:50 PM | 4:10 PM | 0:20 | Ending Remarks |