Conference on Constraint-Based Reconstruction and Analysis Technical Program | AIChE

Conference on Constraint-Based Reconstruction and Analysis Technical Program

Program Book 

Wednesday September 28 2022
Start Time End Time  
9:00 AM 10:30 AM Registration
10:30 AM 10:40 AM Opening Remarks
10:40 AM 12:20 PM Session 1: Multi-Scale Modeling
10:40 AM 11:20 AM Costas Maranas, The Pennsylvania State University

"Quantifying parametric uncertainty in FBA and deploying condition-specific RBA models"
11:20 AM 11:40 AM

     Telmo Blasco

     "A Novel Food Ranking Algorithm Based on Gut Microbiota Metabolism in the Context of                     Personalized Nutrition"

11:40 AM 12:00 PM

     Connor J. Moore

     "Metabolic Modeling of Sex-Specific Tissue Predicts Mechanism of Differences in Toxicological             Responses"

12:00 PM 12:20 PM

      Nathalie Poupin

     "Modelling the Muscle Metabolic Response in Anabolic and Catabolic States Using Arterio-Venous       Blood Metabolomics Profiles"

12:20 PM 1:20 PM Lunch 
1:20 PM 3:00 PM Session 2: Methods and Software I 
1:20 PM 2:00 PM Radharishnan Mahadevan, University of Toronto

"Strain Design Methods for Dynamic Control of Metabolism"
2:00 PM 2:20 PM

     Hadjar Rahou

     "Defining enzyme promiscuity in terms of conserved and reacting moieties"

2:20 PM 2:40 PM

     David Liaskos

     "Parallel Generation of Multiple Condition-Specific Genome-Scale Metabolic Models By                          Integrating Relative Expression and Relative Metabolomics Data"

2:40 PM 3:00 PM

     Luis V. Valcárcel

     "Gmcstool: Automated Network-Based Tool to Search for Metabolic Vulnerabilities in Cancer"

3:00 PM 3:30 PM Break
3:30 PM 4:10 PM

Bernhard Palsson, University of California - San Diego

"Big Data Analytics will impact the COBRA field"


4:10 4:50 Nathan Price, Onegevity

4:50 5:30 Jason Papin, University of Virginia

"Predicting function of microbial communities for therapeutic benefit"
5:30 PM 7:00 PM Welcome Reception and Poster Session I

Thursday September 29, 2022
Start Time End Time  
8:15 AM 9:00 AM Registration
9:00 AM 10:40 AM Session 3: Applications in Medicine
9:00 AM 9:40 AM Anu Raghunathan, CSIR-National Chemical Laboratory

"A Systems Analysis of Temozolomide Response in a Model Glioblastoma Cell-line"
9:40 AM 10:00 AM

     Cyrille Thinnes

     "The Virtual Metabolic Human and COBRA Toolbox"

10:00 AM 10: 20 AM

     Juliette Cooke

     "Samba, a Recommendation System for Biomarker Discovery Using Metabolic Networks"

10:20 PM 10:40 AM

     Filippo Martinelli,

     "Whole-body modelling reveals microbiome-host co-metabolism interaction on formate urinary           production in Alzheimer’s disease"

10:40 AM 11:20 AM Break
11:20 AM 1:00 PM Session 4: Methods and Software II
11:20 AM 12:00 PM Steffen Klamt, Max Planck Institute

"Using COBRA techniques to enable anaerobic growth of E. coli on glycerol in defined minimal medium"
12:00 PM 12:20 PM

     Subasree Sridhar

     "Integration of Reactive Species Reactions in Genome-Scale Metabolic Models for Elucidation of          Cancer Metabolism"

12:20 PM  12:40 PM

     Mauricio Ferreira

     "Prediction of Protein Abundance in Different Environments Using Protein-Constrained Metabolic         Models"

12:40 PM 1:00 PM

     Alexander Kroll

     "Predicting Michaelis constants, turnover numbers, and substrates for enzymes using artificial               intelligence"

1:00 PM 2:00 PM Lunch
2:00 PM 3:40 PM Applications in Metabolic Engineering
2:00 PM 2:40 PM Paula Jouhten

"Predictive evolution of metabolic phenotypes using model-designed selection environments"
2:40 PM 3:00 PM      Charles Foster

     "Integrating Models across Bioprocess Development Stages to Accelerate Product                               Commercialization"
3:00 PM 3:20 PM      Bharath Narayanan

    "Towards Metabolic Engineering Strategies with Minimal Phenotype Perturbations - a Strain Design      Framework Based on Nonlinear Kinetic Models"
3:20 PM 3:40 PM

     Olivia Bulka

     "Metabolic Modeling of a Chloroform and Dichloromethane Degrading Dehalobacter strain"

3:40 PM 5:10 PM Poster Session II and Light Reception

Friday September 30, 2022
Start Time End Time  
8:45 AM 9:00 AM Registration
9:00 AM 10:40 AM Session 6: Microbial Communities
9:00 AM 9:40 AM Almut Heinken, University of Lorraine

"The AGORA2 resource of 7,302 human microbe genome-scale reconstructions and its application to the infant gut"
9:40 AM 10:00 AM

     Shraddha Khirwadkar

     "Determining the Effects of Prebiotics in Infants with Congenital Heart Disease Using Community-          Based Metabolic Modeling"

10:00 AM 10:20 AM

     Francisco Zorrilla

     "Metagenomics-Driven Metabolic Modeling for Microbial Ecology"

10:20 AM 10:40 AM

     Karlis Moors

     "Investigating Host-Microbiome Interactions in C. Elegans Using a Reaction / Gene Deletion                 Approach"

10:40 AM 11:00 AM Break
11:00 AM 12:40 PM Session 7: New Fronteirs
11:00 AM 11:40 PM Ronan Fleming, NUIG

"Multiomic data-driven metabolic modeling constrained with tracer-based metabolomic data"
11:40 PM 12:00 PM

     Diana Szeliova

     "Analyzing Optimal and Non-Optimal Resource Allocations in Whole-Cell Models"

12:00 PM 12:20 PM

     Ljubisa Miskovic

     "Dynamic Studies of Metabolism Using Deep Learning"

12:20 PM 12:40 PM

     Johannes Hertel

     "Towards Cohort-Based Constraint-Based Modelling: Insights from Integrating Population Statistics       Approaches with Constraint-Based Modelling"

12:40 PM 12:50 PM Closing Remarks
12:50 PM 2:00 PM Lunch
2:00 PM 11:00 PM Excursion