Causal Discovery from Biomedical Data – June 8-11, 2015, Carnegie Mellon University, Pittsburgh, PA
Location: Baker Hall, Giant Eagle Auditorium, A51, CMU
Course Director: Richard Scheines, PhD
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Causal Graphical Models – Richard Scheines with Joe Ramsey
- Introduction
- Overview of causal graphical models
- Loading Tetrad
- Causal graphs/interventions
- Building Models
- Parametric models: Bayes nets, Structural Equation Models (SEM), etc.
- Instantiated models
- Estimation
- Estimation
- Inference
- Updating
- Hands-on Real-Data Examples
Dinner on your own, though CCD personnel will be on hand to give advice and rides.
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Search – Richard Scheines with Joe Ramsey
- D-Separation
- Model Equivalence
- Search Basics
- PC
- GES
- GES-IDA
- GES Speed-up
- Hands-on Real-Data Examples
- Latent Variable Model Search
- FCI
- SEM search
Break early for Poster Session and Dinner (6-8 pm)
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[su_tab title=”June 10“]
Biomedical Causal Discovery Overview
- Overview of biomedical problems as case studies
- fMRI (brain functional connectome) – Clark Glymour & Ruben Sanchez-Romero
- Cancer genomic drivers – Xinghua Lu
- Lung disease pathways (susceptibility & progression) – Takis Benos
- Genetic regulatory network examples – Peter Spirtes
- Using Background Knowledge
- Time Series
- Handling Feedback
- Unit of Analysis (single unit, neurons, etc.)
Dinner on your own, though CCD personnel will be on hand to give advice and rides.
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[su_tab title=”June 11“]
Biomedical Causal Discovery Case Studies
Attendees choose the biomedical case studies of most interest to them
- Morning case studies
- fMRI (brain functional connectome) – Clark Glymour & Ruben Sanchez-Romero
- Cancer genomic drivers – Xinghua Lu
- Lung disease pathways (susceptibility & progression) – Takis Benos
- Genetic regulatory network examples – Peter Spirtes
- Group Discussion
- Overview by CCD Systems Architecture & Algorithm groups
- Question & answer period
- Interactive discussion of course material
- Attendees discuss the types of datasets they need to model – help guide CCD algorithm development
- CCD user outreach activities
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