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Brain MRI Collections

Curated external human brain MRI datasets for research, benchmarking, and education.
This repository aggregates links and light metadata to facilitate access from neuroimaging tools (e.g., DSI Studio).

Important: Always follow the original license / DUA of each dataset and cite the original authors.

Datasets in This Repository

  1. NODDI Lifespan dMRI (ucsf-noddi)
  2. DTI Predicts Mandarin Learning (mit-casl)
  3. Southwest University SLIM (swu-slim)
  4. Stark Cross-Sectional Aging (stark-aging)
  5. Penthera 3T (penthera)
  6. NTU-90 (ntu90)
  7. NKI Rockland Sample (nki-rockland)
  8. Multi-Modal MRI Reproducibility Resource (mmrr)
  9. IXI – Institute of Psychiatry (ixi-iop)
  10. IXI – Hammersmith Hospital (ixi-hh)
  11. IXI – Guy’s Hospital (ixi-guys)
  12. Healthy Brain Network (hbn)
  13. Cambridge Centre for Ageing and Neuroscience (cam-can)

1) NODDI Lifespan dMRI (ucsf-noddi)

Diffusion MRI for lifespan white-matter maturation with NODDI (ages 7–63).

  • Participants: 67 healthy controls; includes test–retest subsets
  • Modalities:
    • DTI: single-shell (b≈1000 s/mm²)
    • HARDI: two shells for NODDI modeling
    • T1-weighted MRI
  • License: Governed by the dataset’s UCSF Datashare DUA (see Dryad record)
  • Citation:
    Chang, Y., & Mukherjee, P. (2015). NODDI-PLOS-ONE-Chang et al 2015 [Data set]. Dryad. https://doi.org/10.7272/Q6D798BD
    Primary article: PLOS ONE, “Neurite orientation dispersion and density imaging of brain development across the lifespan” (2015).
  • Source: Dryad – https://doi.org/10.7272/Q6D798BD
  • Typical uses: ND/OD lifespan curves, age prediction, NODDI vs. DTI comparisons, reliability.

GitHub one-line download (ucsf-noddi)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/ucsf-noddi | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/ucsf-noddi").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

2) DTI Predicts Mandarin Learning (mit-casl)

White-matter microstructure and Mandarin second-language learning outcomes.

  • Participants: De-identified adult learners of Mandarin as a second language
  • Modalities: DTI (NIfTI DWI + .bval/.bvec), behavioral / demographic CSV
  • License: CC BY 4.0
  • Citation: Qi, Z. (2017). DTI Predicts Mandarin Learning [Data set]. Zenodo. https://doi.org/10.5281/zenodo.260007 Qi et al. (2014). J Neurolinguistics, 33, 14–28.
  • Source: Zenodo – https://doi.org/10.5281/zenodo.260007
  • Typical uses: Language aptitude biomarkers, FA/tract-based analyses, structure–learning relationships.

GitHub one-line download (mit-casl)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/mit-casl | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/mit-casl").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

3) Southwest University SLIM (swu-slim)

Longitudinal multimodal MRI test–retest sample of young adults.

  • Participants: Healthy young adults, 3.5-year test–retest design
  • Modalities: Eddy-corrected DWI (SRC/FIB), T1w, demographics; behavioral assessments
  • License: CC BY-NC
  • Reference: Liu et al., Sci Data, 2017
  • Source: CoRR / SLIM project; OneDrive links in release
  • Typical uses: Reliability studies, longitudinal modeling, diffusion reconstruction benchmarks.

GitHub one-line download (swu-slim)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/swu-slim | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/swu-slim").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

4) Stark Cross-Sectional Aging (stark-aging)

Cross-sectional aging dataset with detailed imaging and behavior.

  • Participants: ~120 adults, ages 18–89
  • Modalities: Whole-brain DTI, high-res MTL DTI, structural MRI, FreeSurfer segmentations
  • License: CC BY-NC-SA
  • Project page: https://www.nitrc.org/projects/stark_aging/
  • Typical uses: Aging effects on hippocampus, structure–behavior relations, lifespan analyses.

GitHub one-line download (stark-aging)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/stark-aging | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/stark-aging").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

5) Penthera 3T (penthera)

Scan–rescan multi-shell DWI on Philips 3T.

  • Participants: 13 young healthy adults, 6 scans per subject (two sessions × three scans)

  • Modalities:

    • DWI (b=300/1000/2000; 8/32/60 directions; 7×b0; reverse-PE b0)
    • T1w MPRAGE

  • License / Source: Zenodo – https://doi.org/10.5281/zenodo.2602049

  • Typical uses: Multi-shell modeling, distortion correction, scan–rescan reliability.

GitHub one-line download (penthera)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/penthera | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/penthera").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

6) NTU-90 (ntu90)

Classic DSI dataset (NTU-90 atlas source).

  • Participants: 90 subjects (3 mm DSI), plus 1 subject at 2 mm

  • Modalities: DSI, 203 directions, b-max 6000 s/mm², NIfTI

  • License: Non-commercial, educational, research; redistribution requires including original license paragraph

  • Key refs:

    • Yeh & Tseng, NeuroImage 58(1), 91–99 (2011)
    • Yeh et al., IEEE TMI 29(9), 1626–1635 (2010)

  • Typical uses: Tractography evaluation, high-angular sampling methods, atlas work.

GitHub one-line download (ntu90)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/ntu90 | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/ntu90").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

7) NKI Rockland Sample (nki-rockland)

Lifespan community neuroimaging with deep phenotyping.

  • Participants: >1,500, ages 6–85
  • Data: MRI, extensive phenotypes, psychiatric/cognitive measures, genetics, etc.
  • License: CC BY-NC; high-dimensional phenotypes require DUA
  • Reference: Tobe et al., Sci Data 9(1), 300 (2022)
  • Phenotypes: Access via COINS (requires approved DUA)
  • Typical uses: Development, psychiatric associations, longitudinal/connectome studies.

GitHub one-line download (nki-rockland)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/nki-rockland | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/nki-rockland").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

8) Multi-Modal MRI Reproducibility Resource (mmrr)

Scan–rescan multi-parametric MRI resource (3T, 1-hour protocol).

  • Participants: 21 healthy volunteers (no neurological history), scan–rescan
  • Modalities: MPRAGE, FLAIR, DTI, rs-fMRI, B0/B1, ASL, VASO, quantitative T1/T2, MT (NIfTI)
  • Citation: Landman et al., NeuroImage, 2010. doi:10.1016/j.neuroimage.2010.11.047
  • License: BIRN Data License (see NITRC project page)
  • Project page: https://www.nitrc.org/projects/multimodal/
  • Typical uses: Cross-modality reproducibility, power analysis, QC pipelines.

GitHub one-line download (mmrr)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/mmrr | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/mmrr").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

9) IXI – Institute of Psychiatry (ixi-iop)

Site-specific subset of the IXI Dataset.

  • Participants: Healthy subjects scanned at Institute of Psychiatry (GE 1.5T)
  • Modalities: T1w, T2w, PD, MRA, DWI (15 directions)
  • License: CC BY-SA 3.0
  • Project page: https://brain-development.org/ixi-dataset/
  • Typical uses: Site-specific baselines, morphometry + diffusion, multi-site comparisons.

GitHub one-line download (ixi-iop)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/ixi-iop | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/ixi-iop").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

10) IXI – Hammersmith Hospital (ixi-hh)

Site-specific subset of the IXI Dataset.

  • Participants: Healthy subjects scanned at Hammersmith Hospital (Philips 3T)
  • Modalities: T1w, T2w, PD, MRA, DWI (15 directions)
  • License: CC BY-SA 3.0
  • Project page: https://brain-development.org/ixi-dataset/
  • Typical uses: High-field site reference, multi-site harmonization, structural + diffusion baselines.

GitHub one-line download (ixi-hh)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/ixi-hh | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/ixi-hh").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

11) IXI – Guy’s Hospital (ixi-guys)

Site-specific subset of the IXI Dataset.

  • Participants: Healthy subjects scanned at Guy’s Hospital (Philips 1.5T)
  • Modalities: T1w, T2w, PD, MRA, DWI (15 directions)
  • License: CC BY-SA 3.0
  • Project page: https://brain-development.org/ixi-dataset/
  • Typical uses: 1.5T baselines, site-comparison studies, structural + DWI benchmarks.

GitHub one-line download (ixi-guys)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/ixi-guys | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/ixi-guys").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

12) Healthy Brain Network (hbn)

Pediatric / adolescent transdiagnostic biobank (NYC).

  • Participants: Target 10,000 children/adolescents (ages 5–21); multiple phases (baseline, follow-up, retest)
  • Data: Multimodal MRI, EEG, psychiatric/behavioral/cognitive measures, lifestyle, genetics, actigraphy, voice/video
  • License: CC BY-NC; follow HBN citation and DUA guidance
  • Reference: Alexander et al., Sci Data 4(1), 1–26 (2017)
  • Diffusion methods (this repo SRC/FIB): Multishell (b=1000, 2000; 64+64 dirs), TOPUP+eddy via TinyFSL + DSI Studio, RDI + GQI reconstruction (see release).
  • Typical uses: Pediatric mental health, transdiagnostic phenotypes, method development for large pediatric data.

GitHub one-line download (hbn)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/hbn | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/hbn").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

13) Cambridge Centre for Ageing and Neuroscience (cam-can)

Large-scale ageing resource with rich cognitive and imaging data.

  • Participants: Community adults across the adult lifespan

  • Data (this repo):

    • FIB files (GQI reconstruction, ready for DSI Studio tracking)
    • SRC files available only to users with Cam-CAN approval (via private link on request)

  • Diffusion methods: Multishell (b=1000 & 2000; 30+30 dirs), QC-checked b-table, GQI reconstruction (DSI Studio)

  • License: Follows original CamCAN agreement: non-commercial, open-access publication, acknowledgement of CamCAN

  • Typical uses: Ageing and connectomics, tract-specific analyses, method development on well-characterized adults.

GitHub one-line download (cam-can)

Linux / macOS

curl -s https://api.github.com/repos/data-others/brain/releases/tags/cam-can | jq -r '.assets[].browser_download_url' | xargs -n1 -P4 curl -LO

Windows PowerShell

(Invoke-RestMethod "https://api.github.com/repos/data-others/brain/releases/tags/cam-can").assets | ForEach-Object { Invoke-WebRequest $_.browser_download_url -OutFile (Split-Path $_.browser_download_url -Leaf) }

Quick Start

  • Use the Releases tab to inspect per-dataset assets (archives, CSVs, FIB/SRC, metadata).

  • Prefer the one-line commands above to mirror all assets for a given tag.

  • For DSI Studio:

    • Load .nii.gz + .bval + .bvec or SRC/FIB as provided.
    • Run reconstruction (e.g., GQI/DTI), set QA/FA thresholds, then track/export.

For reproducible pipelines, keep software versions and reconstruction parameters under version control with your outputs.

Licensing & Attribution

  • Each release retains its original license / DUA (e.g., CC BY, CC BY-NC, CC BY-NC-SA, BIRN, CC BY-SA, institutional DUA).
  • Always cite the original dataset and primary articles listed in each section.
  • If this aggregation is useful, you may add: “Data access was facilitated via the data-others/brain repository.”

Notes & Caveats

  • Some releases represent partial uploads or derived subsets (e.g., SRC/FIB only).
  • Phenotypic and other sensitive data may require a Data Use Agreement (DUA) or site-specific approval.
  • Anonymization / defacing policies differ across datasets; verify before face-related analyses.

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Brain dMRI Collections

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NODDI Lifespan dMRI (Chang & Mukherjee, 2015) Latest
Nov 4, 2025
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