Krembil Centre for Neuroinformatics Summer School
Solving Problems in Mental Health using Multi-Scale Computational Neuroscience
Distribution Date: June 2022
Krembil Centre for Neuroinformatics, Centre for Addiction and Mental Health
Table of Contents maxLevel 4 minLevel 2
Introductory Concepts
Topic | Instructor | Video | Slides | ||||||
|---|---|---|---|---|---|---|---|---|---|
A Multiscale Approach to Brain Disorders |
| Watch on Crowdcast | slides | ||||||
Problems and opportunities in the diagnosis and treatment of major depression |
| Watch on Crowdcast | slides |
Computing Fundamentals
For those who need more help with computing fundamentals - going into the later content. We recommend content available from the KCNI Scientific Computing Working Group.
| Topic | Tutorial Videos | Online Tutorials | Prerequisit to |
|---|---|---|---|
| R | |||
| Python | Those working with imaging data | ||
| Git/Github | |||
| Linux/Bash |
Reproducible Science (including Git, Docker and Binder)
2022 Watch Party Time(EST) | Session | Instructors | Video | Materials |
|---|---|---|---|---|
| 9:30-11:00am | Workshop 1: Guiding principles for FAIR and open science | Erin Dickie, Sejal Patel | Watch on Crowdcast | slides |
| 11:00-12:30pm | Workshop 2: Tools for Reproducible Science | Erin Dickie, Sejal Patel | Watch on Crowdcast | rstudio example |
Register for the Virtual Q&A
3:30pm EST
Applied Ethics in Machine Learning and Mental Health
2022 Watch Party Time EST | Topic | Instructor | Video | Materials |
|---|---|---|---|---|
| 9:00-10:30am | Lecture 1: Introduction to AI Ethics | Daniel Buchman | Watch on Crowdcast | |
| 10:30-12:00pm | Lecture 2: Fairness and Health Equity | Marta Maslej & Laura Sikstrom | Watch on Crowdcast | slides |
| 12:30-2:00pm | Workshop 1: Research Design, Data Collection, Model Construction and Validation | Marta Maslej & Laura Sikstrom | Watch on Crowdcast | |
| 2:00-3:30pm | Workshop 2: Analysis, Interpretation and Knowledge Exchange and/or Translation | Marta Maslej & Laura Sikstrom | Watch on Crowdcast |
All videos previously recorded July 6th, 2021 as part of the KCNI Summer School
Digital Health for Mental Health
Presented by Abhi Pretap
Fundamental Methods for Genomic Analysis
Time (EST) | Session | Instructor | Video | Materials |
|---|---|---|---|---|
Lecture 1: Basics of genotype, central dogma, GWAS, and polygenic risk scores | Dan Felsky | Watch on Crowdcast | ||
Workshop 1: Intro to transcriptomic data types, including single-cell and bulk RNAseq | Dan Felsky | Watch on Crowdcast |
All videos previously recorded July 7th, 2021 as part of the KCNI Summer School
Fundamental Methods for Single-Cell Transcriptome Analysis
Session | Instructor | Video | Materials | |
|---|---|---|---|---|
Lecture 1: Transcriptomics at the single-cell and bulk level level | Shreejoy Tripathy | Watch on Crowdcast | ||
Workshop 1: Intro to transcriptomic data types, including single-cell and bulk RNAseq | Dan Felsky | Watch on Crowdcast | ||
Workshop 2: Explore cellular changes in major depression using bulk and single-cell RNAseq data | Dan Felsky | Watch on Crowdcast |
All videos previously recorded July 7th, 2021 as part of the KCNI Summer School
TA's: Keon Arbabi, Sonny Chen, Micaela Consens, Amin Kharaghani
Simulating Brain Microcircuit Activity and Signals in Mental Health
Watch Party Time (EST) | Session | Instructors | Video | Materials |
|---|---|---|---|---|
Lecture 1: Simulating brain microcircuit activity in mental health | Etay Hay & Frank Mazza | Watch on Crowdcast | slides | |
Lecture 2: Simulating EEG from brain microcircuits in mental health | Etay Hay & Frank Mazza | Watch on Crowdcast | slides | |
Workshop 1: Simulating and analyzing spiking from neurons and microcircuits | Etay Hay & Frank Mazza | Watch on Crowdcast | ||
Workshop 2: Simulating and analyzing EEG signals from brain microcircuits | Etay Hay & Frank Mazza | Watch on Crowdcast |
All videos previously recorded July 8th, 2021 as part of the KCNI Summer School
Neuroimaging Connectomics
Time (EST) | Session | Instructors | Video | Materials |
|---|---|---|---|---|
Lecture 1: Introduction to neuroimaging connectomics | Erin Dickie & John Griffiths | Watch on Crowdcast | slides | |
Workshop 1: Calculating Neuroimaging Connectomes | Erin Dickie & John Griffiths | Watch on Crowdcast |
Whole-Brain Modelling
Time (EST) | Session | Instructors | Video | Materials |
|---|---|---|---|---|
Lecture 2: Intro to whole-brain modelling (Lecture) | John Griffiths | Watch on Crowdcast | ||
Workshop 2: simulating whole-brain activity, EEG, evoked responses, brain stimulation | John Griffiths | Watch on Crowdcast |
All videos previously recorded July 9th, 2021 as part of the KCNI Summer School
Bayesian Models of Learning and Integration of Neuroimaging Data
Coding Language: MATLAB more setup info
Time (EST) | Session | Instructor | Video | Materials |
|---|---|---|---|---|
Lecture 1: Bayesian Models of Learning | Andreea Diaconescu | Watch on Crowdcast | slides | |
Turorial 1: Hierarchical Gaussian Filter and Simulating Learners | Andreea Diaconescu | Watch on Crowdcast | code (github) | |
Lecture 2: Computational Modelling of EEG Data | Andreea Diaconescu | Watch on Crowdcast | slides | |
Tutorial 2: Single-trial EEG Modelling | Andreea Diaconescu | Watch on Crowdcast | code (github) |
TA's: Colleen Charlton, Daniel Hauke, Peter Bedford, Povilas Karvelis
Population-Based Data Resources & Integrative Research Methods
Session | Instructor | Video | Materials | |
|---|---|---|---|---|
Lecture 1: Population-based resources and the BrainHealth Databank | Joanna Yu | Watch on Crowdcast | ||
Workshop 1: Introduction to interactive methods | Daniel Felsky | Watch on Crowdcast | ||
Lecture 2: Types of integrative research and Whole Person Modelling | Daniel Felsky | Watch on Crowdcast | ||
Workshop 2: SNF / Subtyping | Daniel Felsky | Watch on Crowdcast |