MRI based brain thermometry

AnnaBhlr commented 4 weeks ago

Title

MRI brain thermometry

Leaders

Christian Behler (@ChristianBehler), Anna Behler (@Anna_Neurosci)

Collaborators

No response

Brainhack Global 2024 Event

Brainhack Aus

Project Description

The brain is hot and its thermoregulation underlies different boundary conditions than the body's thermoregulation. Heat in the brain is produced as by-product of metabolism and gets primarily removed by blood flow. In the presence of tumours or neurodegenerative processes this balance can be disturbed. MRI can be used to measure brain temperature via spectroscopy or diffusion. The existing analysis pipelines face many problems. That's what this project is going to address. The first aim is to build a model for the calibration of MRS, and test it on real data. Developing code to handle MRS files is also on the to do list. Secondly, we'd like improve the thermometry based on DWI by automated segmentation of the fourth ventricle. It's also planned to explore how machine learning could be used to remove diffusion artefacts.

Link to project repository/sources

https://github.com/AnnaBhlr/MRI_BrainThermometry

Goals for Brainhack Global

Model for MRS calibration
Code/pipeline to handle MRS files
Automated segmentation of 4th ventricle on diffusion data
Ideas brainstormed on diffusion artefact removal

Good first issues

Could GLMM a good path for model of MRS calibration?
Which open source data sets could be used to implement automated segmentation?

Communication channels

https://mattermost.brainhack.org/brainhack/channels/brainthermometry

Skills

Newcomer to deep learning pro...each project aim fits a different skill level.

Onboarding documentation

No response

What will participants learn?

Participants would learn about an overlooked topic and methodology. Coding newbie can start easy with computational modelling and how to handle imaging data.

Data to use

No response

Number of collaborators

more

Credit to collaborators

Project contributors will be acknowledged on project readme and will be listed as co-authors if project eventually ends in a publication.

Image

Type

coding_methods, data_management, method_development, pipeline_development

Development status

0_concept_no_content

Topic

deep_learning, diffusion, MR_methodologies, statistical_modelling, other

Tools

Brainstorm, other

Programming language

Python

Modalities

DWI, other

Git skills

0_no_git_skills

Anything else?

No response

Things to do after the project is submitted and ready to review.

[X] Add a comment below the main post of your issue saying: Hi @brainhackorg/project-monitors my project is ready!
[ ] Twitter-sized summary of your project pitch.

crnolan commented 4 weeks ago

Hey @AnnaBhlr is this ready to go?

AnnaBhlr commented 3 weeks ago

yes!

brainhackorg / global2024