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
Please register at: https://www.crowdcast.io/e/kcni-summer-school-2021
Our Learning Modules:
Day 1: Welcome! Understanding Clinical Research Questions and Reproducible Science (July 5, 2021)
Day 2: Applied Ethics in Machine Learning and Mental Health (July 6, 2021)
Day 3: Fundamental Methods for Genomic and Single-Cell Transcriptome Analysis (July 7, 2021)
Day 4: Simulating Brain Microcircuit Activity and Signals in Mental Health (July 8, 2021)
Day 5: Whole-Brain Modelling and Neuroimaging Connectomics (July 9, 2021)
Day 6: Bayesian Models of Learning and Integration of Neuroimaging Data (July 12, 2021)
Day 7: Digital Health and Population-Based Data Resources (July 13, 2021)
Day 8: Integrative Research Methods and Final Panel Discussion (July 14, 2021)
Learning Modules
Computing Fundamentals
Reproducible Science
Day 1: Welcome! Understanding Clinical Research Questions and Reproducible Science (July 5, 2021)
Instructors: Erin Dickie, Sean Hill, Sejal Patel, Victor Tang, Brett Jones
TA's: Kevin Kadak, Taha Morshedzadeh, Kevin Witczak
Time (EST) | Session | |
|---|---|---|
9:00-10:30 | Lecture 1: Welcome and Orientation | Watch on Crowdcast |
10:45-12:15 | Lecture 2: Problems and opportunities in the diagnosis and treatment of major depression | Watch on Crowdcast |
1:00-2:30pm | Workshop 1: Guiding principles for FAIR and open science | Watch on Crowdcast |
2:45-4:15pm | Workshop 2: Tools for Reproducible Science | Watch on Crowdcast |
Problems and opportunities in the diagnosis and treatment of major depression
(July 5, 2021)
Instructors: Victor Tang, Brett Jones
Time (EST) | Session | |
|---|---|---|
9:00-10:30 | Lecture 1: Welcome and Orientation | Watch on Crowdcast |
10:45-12:15 | Lecture 2: Problems and opportunities in the diagnosis and treatment of major depression | Watch on Crowdcast |
1:00-2:30pm | Workshop 1: Guiding principles for FAIR and open science | Watch on Crowdcast |
2:45-4:15pm | Workshop 2: Tools for Reproducible Science | Watch on Crowdcast |
Day 1: Welcome! Understanding Clinical Research Questions and Reproducible Science (July 5, 2021)
Instructors: Erin Dickie, Sean Hill, Sejal Patel, Victor Tang, Brett Jones
TA's: Kevin Kadak, Taha Morshedzadeh, Kevin Witczak
Time (EST) | Session | |
|---|---|---|
9:00-10:30 | Lecture 1: Welcome and Orientation | Watch on Crowdcast |
10:45-12:15 | Lecture 2: Problems and opportunities in the diagnosis and treatment of major depression | Watch on Crowdcast |
1:00-2:30pm | Workshop 1: Guiding principles for FAIR and open science | Watch on Crowdcast |
2:45-4:15pm | Workshop 2: Tools for Reproducible Science | Watch on Crowdcast |
Applied Ethics in Machine Learning and Mental Health
Instructors: Daniel Buchman, Marta Maslej & Laura Sikstrom
All videos previously recorded July 6th, 2021 as part of the KCNI Summer School
Zoom Q&A | Session | Video Link | Video duration | Materials | Pre-discussion watch party |
|---|---|---|---|---|---|
Lecture 1: Introduction to AI Ethics | Watch on Crowdcast | ||||
Lecture 2: Fairness and Health Equity | Watch on Crowdcast | ||||
Workshop 1: Research Design, Data Collection, Model Construction and Validation | Watch on Crowdcast | ||||
Workshop 2: Analysis, Interpretation and Knowledge Exchange and/or Translation | Watch on Crowdcast |
Day 3: Fundamental Methods for Genomic and Single-Cell Transcriptome Analysis (July 7, 2021)
Instructors: Shreejoy Tripathy & Dan Felsky
TA's: Keon Arbabi, Sonny Chen, Micaela Consens, Amin Kharaghani
Time (EST) | Session | |
|---|---|---|
9:00-10:30 | Lecture 1: Basics of genotype, central dogma, GWAS, and polygenic risk scores | Watch on Crowdcast |
10:45-12:15 | Lecture 2: Transcriptomics at the single-cell and bulk level level | Watch on Crowdcast |
1:00-2:30pm | Workshop 1: Intro to transcriptomic data types, including single-cell and bulk RNAseq | Watch on Crowdcast |
2:45-4:15pm | Workshop 2: Explore cellular changes in major depression using bulk and single-cell RNAseq data | Watch on Crowdcast |
Day 4: Simulating Brain Microcircuit Activity and Signals in Mental Health (July 8, 2021)
Instructors: Etay Hay & Frank Mazza
Time (EST) | Session | |
|---|---|---|
9:00-10:30 | Lecture 1: Simulating brain microcircuit activity in mental health | Watch on Crowdcast |
10:45-12:15 | Lecture 2: Simulating EEG from brain microcircuits in mental health | Watch on Crowdcast |
1:00-2:30pm | Workshop 1: Simulating and analyzing spiking from neurons and microcircuits | Watch on Crowdcast |
2:45-4:15pm | Workshop 2: Simulating and analyzing EEG signals from brain microcircuits | Watch on Crowdcast |
Day 5: Whole-Brain Modelling and Neuroimaging Connectomics (July 9, 2021)
Instructors: Erin Dickie & John Griffiths
TA's: Shreyas Harita, Jerrold Jeyachandra, Kevin Kadak
Time (EST) | Session | |
|---|---|---|
9:00-10:30 | Lecture 1: Introduction to neuroimaging connectomics | Watch on Crowdcast |
10:45-12:15 | Workshop 1: Calculating Neuroimaging Connectomes | Watch on Crowdcast |
1:00-2:30pm | Lecture 2: Intro to whole-brain modelling (Lecture) | Watch on Crowdcast |
2:45-4:15pm | Workshop 2: simulating whole-brain activity, EEG, evoked responses, brain stimulation | Watch on Crowdcast |
Day 6: Bayesian Models of Learning and Integration of Neuroimaging Data (July 12, 2021)
Instructors: Andreea Diaconescu
TA's: Colleen Charlton, Daniel Hauke, Peter Bedford, Povilas Karvelis
Time (EST) | Session | |
|---|---|---|
9:00-10:30 | Lecture 1: Bayesian Models of Learning | Watch on Crowdcast |
10:45-12:15 | Turorial 1: Hierarchical Gaussian Filter and Simulating Learners | Watch on Crowdcast |
1:00-2:30pm | Lecture 2: Computational Modelling of EEG Data | Watch on Crowdcast |
2:45-4:15pm | Tutorial 2: Single-trial EEG Modelling | Watch on Crowdcast |
Day 7: Digital Health and Population-Based Data Resources (July 13, 2021)
Instructors: Daniel Felsky, Abhi Pratap & Joanna Yu
TA's: Mohamed Abdelhack, Grace Jacobs, Amin Kharaghani, Marta Maslej, Milos Milic, Earvin Tio
Time (EST) | Session | |
|---|---|---|
9:00-10:30 | Lecture 1: Digital Health for Mental health | Watch on Crowdcast |
10:45-12:15 | Lecture 2: Population-based resources and the BrainHealth Databank | Watch on Crowdcast |
1:00-2:30pm | Workshop 1: accessing reproducible datasets from Synapse as part of integrated workflow | Watch on Crowdcast |
2:45-4:15pm | Workshop 2: Introduction to interactive methods | Watch on Crowdcast |
Day 8: Integrative Research Methods and Final Panel Discussion (July 14, 2021)
Instructors: Daniel Felsky & Abhi Pratap + All Instructor Panel
TA's: Mohamed Abdelhack, Amin Kharaghani, Marta Maslej, Milos Milic, Earvin Tio
Time (EST) | Session | |
|---|---|---|
9:00-10:30 | Lecture 1: Types of integrative research and Whole Person Modelling | Watch on Crowdcast |
10:45-12:15 | Workshop: SNF / Subtyping | Watch on Crowdcast |
1:00-2:30pm | Group Panel Discussion | Watch on Crowdcast |
2:45-4:15pm | Final Social Hour |
Additional Lecture Content (no zoom Q&A event)
"A Multiscale Approach to Brain Disorders” - presented by Sean Hill,
Lecture: “A Multiscale Approach to Brain Disorders”
Presented by: Sean Hill, Ph.D. Director, Krembil Centre for Neuroinformatics Senior Scientist, Centre for Addiction and Mental Health Professor, Departments of Psychiatry and Physiology, University of Toronto, Canada Titular Professor, École Polytechnique Fédérale de Lausanne, Switzerland krembilneuroinformatics.ca
Recorded on July 5, 2021 as a part of the Centre for Addiction and Mental Health’s Krembil Centre for Neuroinformatics (KCNI) Summer School, (CAMH KCNI SS)
Slides available from: https://github.com/krembilneuroinformatics/kcni-school-lessons/blob/8ef714f18125ff7f905ef61c97a995bc18e705a2/day1/KCNISS_day1_1_Hill-compressed.pdf
KCNI Summer School schedule and materials at: https://github.com/krembilneuroinformatics/kcni-school-lessons
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