Tutorial Workshop on Parameter Estimation for Biological Models

Talks: SAS Hall 1102
Coffee Breaks: SAS Hall 4th floor

Sunday July 28th: Check in to campus housing

Monday July 29th: Identifiability and Least Squares

8:00 – 8:45 Registration in SAS Hall first floor lobby
8:45 – 9:00 Welcoming remarks (Alun Lloyd)
9:00 – 10:15 Tutorial Lecture: Least squares (Alun Lloyd – NCSU) Video and Slides. Complex step method for sensitivity analysis: Martins et al. 2000
10:15 – 10:45 Coffee Break
10:45 – 12:15 Computer Practical: Least squares (Alun Lloyd – NCSU) Slides and Code (zipfile)

12:15 – 1:30 Lunch Break

1:30 – 2:15 Research Talks:
1) Parameter Estimation and Uncertainty Quantification in the Presence of Numerical Error, John Nardini, (NCSU) Video and Slides
2) TDA for biological ring channels, Veronica Ciocanel (MBI, OSU) Video and slides

2:15 – 3:30 Tutorial Lecture: Identifiability (Marisa Eisenberg, University of Michigan) Video and Slides
3:30 – 4:00 Coffee Break
4:00 – 5:30 Computer Practical: Identifiability (Marisa Eisenberg, University of Michigan) Slides and code

Tuesday July 30th: Sensitivity Analysis and Experimental Design

8:30 – 8:45 Remarks (Mette Olufsen)
8:45 – 10:00 Tutorial Lecture: Optimal experimental design (Alen Alexanderian, NCSU) Video and Slides
10:00 – 10:30 Coffee Break
10:30 – 12:15 Computer Practical: Optimal experimental design (Alen Alexanderian, NCSU) Slides and Code
12:15 – 1:30 Lunch Break

1:30 – 2:15 Research Talk: Using parameter estimation to analyze outcomes for heart transplant patients (Mette Olufsen, NCSU) Video and Slides
2:15 – 3:30 Tutorial Lecture: Ensemble Modeling (David Swigon, University of Pittsburgh) Video and Slides
3:30 – 3:45 Coffee Break
3:45 – 5:15 Computer Practical: Ensemble Modeling (David Swigon, University of Pittsburgh) Code
5:30 – 7:30 Poster Session (Light refreshments served)

Wednesday July 31st: Bayesian Analysis and Machine Learning

8:30 – 8:45 Remarks (Mette Olufsen)
8:45 – 10:00 Tutorial Lecture: Uncertainty Quantification for Biological Models (Ralph Smith, NCSU) Video and Slides
10:00 – 10:30 Coffee Break
10:30 – 12:15 Computer Practical: Uncertainty Quantification for Biological Models (Ralph Smith, NCSU) Slides and code. Also: Video of practical

12:15 – 1:30 Lunch Break

1:30 – 2:15 Research Talk: Hybridizing non-parametric and parametric models for biological data (Kevin Flores, NCSU) Video and Slides
2:15 – 3:30 Tutorial Lecture: Machine learning (Hien Tran, NCSU) Video and Slides
3:30 – 3:45 Coffee Break
3:45 – 5:15 Computer Practical: Machine learning (Hien Tran, NCSU) Code for practical and Video of first part of practical

Thursday Aug 1st: Global Sensitivity Analysis

8:30 – 8:45 Remarks (Mette Olufsen)
8:45 – 10:00 Tutorial Lecture: global sensitivity analysis (Pierre Gremaud, NCSU) Video and Slides
10:00 – 10:30 Coffee Break
10:30 – 12:15 Computer practical: global sensitivity analysis (Pierre Gremaud, NCSU) Code for practical and Video of practical
12:15 – 12:30 Closing Remarks (Lloyd and Olufsen)

12:30 – Transport to RDU


Miscellaneous videos from previous years

2018: Tyrus Berry (George Mason University) Talk on filtering and practical

2018: Brian Reich (NC State University) Talk on Bayesian approaches and practical