brainhack-school2020 / hannahkiesow_riskybrain

Predicting risky behavior in structural brain volume using the UK Biobank

Project for BrainHack School 2020

Team Contributors: Hannah Kiesow & Elise Douard

Introduction

Hi! I am a second year PhD student studying computational neuroscience, working in the lab of Dr. Danilo Bzdok at McGill University. My research interests are in social cognition, and I am extremely fascinated with social interaction. My lab focuses on big data in neuroscience using data-driven methods. For my current projects, I mainly use Bayesian probabilistic modelling to analyze my data, using the UK BioBank, one of the world's largest biomedical databases. However I am starting to branch into machine learning and am super eager to apply ML methods in neuroimaging. My experience so far has been working mostly with structural MRI images, but I would love to branch out and work with other neuroimaging modalities.

Looking forward to collaborating with you!
twitter: @hannahmaykiesow

Project Definition

Goals:

• I would ideally like to focus on using machine learning techniques. I would definitely like to focus on getting intuitions behind different ML techniques, and perhaps try out different ensemble methods for prediction

• I also would like to get to know the nilearn API more in depth, especially working with the different atlases for feature engineering.

• Lastly, I think visualization is an extremely important skill to invest in. That's why I want to explore other visualization tools using python such as bokeh or ptit prince.

Progress overview

• So far, I am learning Canonical Correlation Analysis (CCA) so that I can first create my features using two atlases, the Social Brain Atlas and the Harvard Oxford Atlas

Tools

• Nilearn (working with different atlases)
• Machine Learning (sklearn)
• Visualization (ptit prince, seaborn, bokeh)

Data

• UK Biobank data (~10,000 person release)

Deliverables

At the end of this project, we will have:

• a better understanding and intuition of several machine learning algorithms suitable for neuroimaging
• a deeper understanding of feature engineering via atlases
• hopefully made a pretty figure :D

Tools I learned during this project

• Canonical Correlation Analysis

Results

Conclusion and acknowledgement

hannahkiesow_riskybrain's Issues

Asking for some advices on structural data UKBB

Hey Hannah,

As you said that your main thesis project is on UKBB, I may have some questions during the following weeks on their derived-structural data and the corrections to add to the models.
Do you have some references of predilection about that?

Thanks and see you in dm ;)

Behavioral data in the biobank

Cool project!
I wanted to ask what kind of task the subjects had done in order to get their risky behavior measurements? Is it available in the UK bio bank data?

Thanks!
Liz

Data

We discussed the ABIDE dataset. Do you think you will use ABIDE data from a single site, or the complete dataset?