CONP Portal | Dataset


dataset format
CONP status
243
NA
Adolescent Brain Development
  • Creators: Catherine Lebel
  • Version: 1.0
  • Date Added: 2023-10-11
  • Date Updated: 2024-09-12
  • Modalities: MRI Image, Diffusion-weighted MRI 3D image, T1-weighted MRI 3D image, T2-weighted MRI 3D image, Susceptibility-weighted MRI 3D image, Blood Oxygen Level Dependent Functional Magnetic Resonance Imaging
  • License: PDDL
  • Files: 6847
  • Size: 56.0 GB
  • Subjects: 51
  • Formats: COMPRESSED NIFTI (*NIIGZ)
ARK ID : https://n2t.net/ark:/70798/d7sxgw9r21d552v675
Adolescent Brain Development
Creators: Catherine Lebel
Principal Investigator: Catherine Lebel
Contact: Developmental Neuroimaging Lab, brainmri@ucalgary.ca
Licenses: PDDL
Version: 1.0
Size: 56.0 GB
No of Files: 6847
No of Subjects: 51
Primary Publication: Multimodal principal component analysis to identify major features of white matter structure and links to reading. Bryce Geeraert et al. PLOS One. https://doi.org/10.1371/journal.pone.0233244
Metadata file: DATS.json
Is About: Homo sapiens
Acknowledges: Natural Sciences and Engineering Research Council Canada
Spatial Coverage: Calgary
Description:
-- Recruitment -- Healthy children were recruited via posters and word of mouth. Children were recruited between 6 and 13 years of age. Inclusion criteria were: 1) uncomplicated birth between 37 to 42 weeks' gestation, 2) no history of developmental disorder or psychiatric disease, 3) no history of neurosurgery, 4) no contraindications to MRI. All subjects provided informed assent and parents/guardians provided writted informed assent. -- Data Acquisition -- All data was acquired at the Alberta Children's Hospital on a GE 3T Discovery MR750w system. Participants were asked to return after 2 years to provide a longitudinal time point with the same scan protocol and cognitive examination battery. Some participants returned for a third visit, as they reached 4 years from their initial time point while the study was still actively acquiring data. A battery of cognitive examinations was also collected during study visits. Exams were conducted in an isolated exam room with the examiner and participant only. Subtests from several studies were included in this battery, and administered if the participant was of appropriate age per subtest. This typically occurred during a separate appointment unless participants requested MRI and cognitive exam on the same day.

Dataset README information

README.md

OVERVIEW

  • Project name: Adolescent Brain Development
  • Project location: University of Calgary, Alberta, Canada
  • Project duration: 2014-2020
  • Funding: Natural Sciences and Engineering Research Council of Canada
  • Ethics approval: Approved by local research ethics board (ethics ID: REB13-1346)
  • Contact email address: brainmri@ucalgary.ca

Dataset contents

  • 7051 files, 55.7GB
  • MRI modalities: T1, T2, DWI (b900, b2000), ihMT, QSM, mcDESPOT, fMRI (resting state), ASL
    • PLEASE NOTE : DWI bval and bvec files produced during dcm2nii conversion are inaccurate. The correct bval and bvec tables are provided in the top-level folder, see: 'AdoBrainDev_b900.bval'/'...b900.bvec' and 'AdoBrainDev_b2000.bval'/'...b2000.bvec'
  • 51 Subjects
    • 16 subjects with 1 time point only
    • 23 subjects with 2 time points
    • 12 subjects with 3 time points

METHODS

-- Recruitment --

Healthy children were recruited via posters and word of mouth. Children were recruited between 6 and 13 years of age. Inclusion criteria were: 1) uncomplicated birth between 37 to 42 weeks' gestation, 2) no history of developmental disorder or psychiatric disease, 3) no history of neurosurgery, 4) no contraindications to MRI. All subjects provided informed assent and parents/guardians provided writted informed assent.

-- Data Acquisition --

All data was acquired at the Alberta Children's Hospital on a GE 3T Discovery MR750w system.

Participants were asked to return after 2 years to provide a longitudinal time point with the same scan protocol and cognitive examination battery. Some participants returned for a third visit, as they reached 4 years from their initial time point while the study was still actively acquiring data.

A battery of cognitive examinations was also collected during study visits. Exams were conducted in an isolated exam room with the examiner and participant only. Subtests from several studies were included in this battery, and administered if the participant was of appropriate age per subtest. This typically occurred during a separate appointment unless participants requested MRI and cognitive exam on the same day. The full list of subtests was:

  • WASI-II
    • Block Design
    • Vocabulary
    • Matrix Reasoning
    • Similarities
  • NEPSY-II
    • Comprehension of Instructions
    • Narrative Memory
    • Phonological Processing
    • Speeded Naming
  • WIAT-III (Canadian)
    • Early Reading Skills
    • Reading Comprehension
    • Math Problem Solving
    • Word Reading
    • Pseudoword Decoding
    • Numerical Operations
    • Oral Reading Fluency
    • Math Fluency (Addition, Subtraction, Multiplication)

Cognitive scores may be requested using the contact email above.

Download Using DataLad

CircleCI status

The following instructions require a basic understanding of UNIX/LINUX command lines. A subset of open datasets on the Portal are also available through a browser-based download button. The instructions below regard dataset download with the use of DataLad. To install DataLad on your system, please refer to the install section of the DataLad Handbook .

Note: For maximum compatibility with conp-dataset, the CONP recommends versions 3.12+ of Python, 10.20241202+ of git-annex, and 1.1.4+ of datalad.

1) Initiate the CONP dataset

Run the following command in the directory where you want the CONP dataset (conp-dataset) to be installed:

datalad install https://github.com/CONP-PCNO/conp-dataset.git
2) Install the AdolescentBrainDevelopment dataset

To install the AdolescentBrainDevelopment dataset, run the following commands to move into the "projects" subdirectory under the "conp-dataset" directory (created in the previous step) and run datalad install:

cd conp-dataset/projects
datalad install AdolescentBrainDevelopment
3) Download data from the AdolescentBrainDevelopment dataset

Now that the dataset has been installed, go into the AdolescentBrainDevelopment dataset directory.

cd AdolescentBrainDevelopment

The files visible after installing the dataset but before downloading (in the next step) are symbolic links and need to be downloaded manually using the datalad get command:

datalad get <filepath>

If you run datalad get * command, all the files available in the dataset directory will be downloaded.


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