BrainAtlas MRI data and viewer credits

C-STAR stroke case
## About

 3T MRI scans (FLAIR, T1, T2) from an individual with chronic left hemisphere stroke. Data from the Center for the Study of Aphasia Recovery (C-STAR). This NIH supported project (P50 DC014664). Provided under the MIT license (see parent folder). Images have bit downsampled to 8-bit precision and brain extracted, yielding small file sizes. T1-weighted images show good contrast between gray and white matter (with fatty myelin appearing bright).  Both the water of the cerebrospinal fluid (CSF) as well as the injury appear bright in the T2-weighted scan. The T2-weighted fluid-attenuated inversion recovery (FLAIR) sequence makes the CSF dark, helping to emphasize the injury and white matter hyperintensities (WMH).
 
MIT License

Copyright (c) 2020 Chris Rorden

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NiiVue 0.69.0
BSD 2-Clause License

Copyright (c) 2021, Niivue
All rights reserved.

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MNI ICBM152 reference, via niivue-demo-images
Copyright (C) 1993-2004 Louis Collins, McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University. Permission to use, copy, modify, and distribute this software and its documentation for any purpose and without fee is hereby granted, provided that the above copyright notice appear in all copies. The authors and McGill University make no representations about the suitability of this software for any purpose. It is provided "as is" without express or implied warranty. The authors are not responsible for any data loss, equipment damage, property loss, or injury to subjects or patients resulting from the use or misuse of this software package.
References: Fonov et al. 2011, doi:10.1016/j.neuroimage.2010.07.033; Fonov et al. 2009, doi:10.1016/S1053-8119(09)70884-5.


Meningioma and peritumoral edema: OpenNeuro ds007345, version 1.0.2, sub-olf02.
CC0 1.0 Universal: https://creativecommons.org/publicdomain/zero/1.0/
Dataset: https://openneuro.org/datasets/ds007345/versions/1.0.2
Filimonova, Pashkov, Moysak, Martirosyan, Kurilov, Poptsova, Morozova and Rzaev, 2026. doi:10.3389/fradi.2026.1809871
Shared 1.25 mm RAS grid covering the postcontrast T1 field of view. Source spatial transforms retained; no motion registration. Images: Gaussian anti-aliasing then linear interpolation, rounded to original integer intensity units; original intensity scale retained. Masks: nearest-neighbour interpolation. Only the matching source-sequence mask is displayed. Source data were defaced by their authors.
{
    "BIDSVersion": "1.8.0",
    "Name": "Multimodal Brain MRI and Clinical Data in Olfactory Groove Meningioma: A Prospective Data Report",
    "Authors": [
        "Elena Filimonova",
        "Anton Pashkov",
        "Galina Moysak",
        "Azniv Martirosyan",
        "Vladimir Kurilov",
        "Aleksandra Poptsova",
        "Renata Morozova",
        "Jamil Rzaev"
    ],
    "DatasetDOI": "doi:10.18112/openneuro.ds007345.v1.0.2",
    "License": "CC0",
    "EthicsApprovals": [
        "Ethics approval for the research protocol was given by the local ethics committee of the Federal Center of Neurosurgery, dated 03-14-2023 (protocol # 5)"
    ],
    "Funding": [
        "This study was supported by the Russian Science Foundation (RSF grant 25-25-00370). "
    ]
}

Additional MRI teaching cases
{
  "ms": {
    "source": "https://doi.org/10.6084/m9.figshare.27919209.v1",
    "citation": "Guarnera et al., Scientific Data 2025, doi:10.1038/s41597-025-05250-y",
    "license": "CC-BY-4.0",
    "patient": "P1, first timepoint (T1 denotes visit here, not sequence)",
    "processing": "No modifications to source voxels or transforms. Author-preprocessed MNI152 1mm images: affine registration, brain extraction. Manual lesion mask from FLAIR; displayed only on FLAIR."
  },
  "fcd": {
    "source": "https://openneuro.org/datasets/ds004199/versions/1.0.6",
    "citation": "Schuch et al., 2023, An open presurgery MRI dataset of people with epilepsy and focal cortical dysplasia type II.",
    "license": "CC0-1.0",
    "patient": "sub-00058, FCD IIb, left frontal lobe",
    "processing": "Source-defaced images. Shared 1.5mm RAS grid covering FLAIR field of view; Gaussian anti-aliasing and linear interpolation, 12-bit intensity quantization with adjusted scale (maximum quantization error below 0.025% of original stored intensity range). Nearest-neighbour mask interpolation. Original acquisition coordinates, no added motion registration. Author annotation displayed on FLAIR only."
  }
}
MSLesSeg: https://creativecommons.org/licenses/by/4.0/
Focal cortical dysplasia: https://creativecommons.org/publicdomain/zero/1.0/


TCIA glioblastoma and brain metastases
{
  "metastases": {
    "source": "https://www.cancerimagingarchive.net/collection/pretreat-metstobrain-masks/",
    "doi": "https://doi.org/10.7937/6be1-r748",
    "version": "1",
    "subject": "BraTS-MET-00086-000",
    "license": "CC-BY-4.0",
    "license_url": "https://creativecommons.org/licenses/by/4.0/",
    "citation": "Ramakrishnan, Divya; Jekel, Leon; Chadha, Saahil; Janas, Anastasia; Moy, Harrison; Maleki, Nazanin; Sala, Matthew; Kaur, Manpreet; Petersen, Gabriel Cassinelli; Merkaj, Sara; von Reppert, Mark; Baid, Ujjwal; Bakas, Spyridon; Kirsch, Claudia; Davis, Melissa; Bousabarah, Khaled; Holler, Wolfgang; Lin, MingDe; Westerhoff, Malte; Aneja, Sanjay; Memon, Fatima; Aboian, Mariam (2023). A Large Open Access Dataset of Brain Metastasis 3D Segmentations on MRI with Clinical and Imaging Feature Information (Version 1). The Cancer Imaging Archive. https://doi.org/10.7937/6be1-r748",
    "processing": "Image files unchanged from TCIA. Skull removal, registration and 1 mm grids provided by the dataset authors. Display masks preserve selected source labels on their original grid. No new segmentation. Only the provided contrasts are offered.",
    "download_validation": "Every selected source NIfTI matches the MD5 manifest downloaded from the same TCIA public package."
  },
  "glioma": {
    "source": "https://www.cancerimagingarchive.net/collection/ucsf-pdgm/",
    "doi": "https://doi.org/10.7937/tcia.bdgf-8v37",
    "version": "5",
    "subject": "UCSF-PDGM-0004",
    "license": "CC-BY-4.0",
    "license_url": "https://creativecommons.org/licenses/by/4.0/",
    "citation": "Calabrese, Evan; Villanueva-Meyer, Javier; Rudie, Jeffrey; Rauschecker, Andreas; Baid, Ujjwal; Bakas, Spyridon; Cha, Soonmee; Mongan, John; Hess, Christopher (2022). The University of California San Francisco Preoperative Diffuse Glioma MRI (UCSF-PDGM) (Version 5). The Cancer Imaging Archive. https://doi.org/10.7937/tcia.bdgf-8v37",
    "processing": "Image files unchanged from TCIA. Skull removal, registration and 1 mm grids provided by the dataset authors. Display masks preserve selected source labels on their original grid. No new segmentation. Only the provided contrasts are offered.",
    "diagnosis": "Glioblastoma, IDH-wildtype, WHO CNS grade 4; diagnosis from UCSF-PDGM metadata v5, ID UCSF-PDGM-004, not inferred from images."
  }
}
TCIA archive citation: Clark et al. (2013). The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository. Journal of Digital Imaging, 26, 1045–1057. https://doi.org/10.1007/s10278-013-9622-7