CONP Portal | Dataset

Keywords: Structural MRI
High Resolution Magnetic Resonance Imaging of Mouse Model related to Autism
Creators: Ontario Brain Institute, Mouse Imaging Centre
Contact: Jacob Ellegood, Research Associate,
Licenses: Refer to Brain-CODE Governance Policy
Version: 1.0
Modalities: MRI
Formats: MINC CSV
Size: 208.9 GB
No of Files: 4299
No of Subjects: 839
Metadata file: DATS.json
Acknowledges: Ontario Brain Institute, Province of Ontario Neurodevelopmental Disorders, Government of Ontario
Spatial Coverage: Toronto
Other Dates: Release Date: 2018-02-01 -- Start Date: 2012-02-01 -- End Date: 2017-02-01
This dataset includes 31 mouse models representing 23 genotypes from their ongoing study of 90+ mouse strains

Dataset README information

High Resolution Magnetic Resonance Imaging of Mouse Model related to Autism


Drs. Jason Lerch, Jacob Ellegood, Mark Henkelman and their team at the Mouse Imaging Centre (MICe) at the Hospital for Sick Children have pioneered high throughput mouse brain Magnetic Resonance Imaging (MRI) to better understand how autism affects the brain.
In collaboration with multiple international and national labs, the team is using MRI to phenotype multiple mouse strains with genetic mutations that are known to be associated with autism.
These images capture the complex heterogeneity inherent in the autism spectrum and also identify key brain areas that are commonly involved across these mouse models.
The MRI images provide whole brain coverage, and with advanced image processing and statistics, allow the determination of alterations in brain structure or microstructure to a resolution of 40-80 microns.

This open data release includes 31 mouse models representing 23 genotypes from their ongoing study of 90+ mouse strains, which will continue to be shared in future releases.

This project was funded by the Ontario Brain Institute’s POND Program, with support from Brain Canada and CIHR.


The dataset could be requested via authorized access on
To request data set on Brain-CODE, sign-up by clicking “Register”.
Registered portal users have access to interactive dashboards for data exploration and data download.

Download Using DataLad

CircleCI status

The following instructions require a basic understanding of UNIX/LINUX command lines. Future portal functionality may include downloads directly from the web browser. Dataset download is currently enabled through DataLad.

Note: The conp-dataset requires version >=0.12.5 of DataLad and version >=8.20200309 of git-annex.

To install DataLad on your system, please refer to the install section of the DataLad Handbook (installation via miniconda is recommended in order to obtain the latest version of DataLad).

1) Initiate the CONP dataset

To initiate the CONP dataset (conp-dataset), run the following command in the directory where you want CONP datasets to be installed:

datalad install

2) Install the braincode_Mouse_Image dataset

To install the dataset, go into the created conp-dataset directory and run datalad install on the dataset braincode_Mouse_Image:

cd conp-dataset
datalad install projects/braincode_Mouse_Image

3) Download the braincode_Mouse_Image dataset

Now that the DataLad dataset has been installed, go into the dataset directory under projects/braincode_Mouse_Image.

cd projects/braincode_Mouse_Image

Note that files visible in the dataset are symlinks and will need to be downloaded manually using the datalad get command in the dataset directory:

datalad get <filepath>

Note, if you run datalad get * command, all the files present in the dataset directory will be downloaded.

For more information on how DataLad works, please visit the DataLad Handbook documentation .