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Data Access

Click the Versions tab for more info about data releases.

• Imaging Data Commons (IDC) (Imaging Data)
  • CPTAC-GBM , TCGA-GBM , TCGA-LGG , UPENN-GBM
• Genomic Data Commons (GDC) (Genomic, Digitized Histopathology & Clinical Data)
  • CPTAC-GBM , TCGA-GBM , TCGA-LGG
• Proteomic Data Commons (PDC) (Proteomic & Clinical Data)
  • CPTAC-GBM

Additional Resources for this Dataset

The following external resources have been made available by the data submitters.  These are not hosted or supported by TCIA, but may be useful to researchers utilizing this collection.

• Software / Code on Github
• Genomics data in DbGAP or Gene Expression Omnibus
• RSNA or kaggle link to molecular marker table 

• IvyGAP provides access to additional resources for this data:

  • Summary ISH, RNA, gene expression and clinical data
  • Detailed clinical, genomic, and expression array data

TCIA Collections Used (in part) in these analyses:

Third Party Analyses of this Dataset

TCIA encourages the community to publish your analyses of our datasets. Below is a list of such third party analyses published using this Collection:

Detailed Description

NOTE:  The "challenge test set dataset" is sequestered on synapse.org (Project SynID: syn25829067). Please see their site for more detail.

The data used in BraTS Challenges often have some overlap with other TCIA Collections, cases, and series. Some filters for handling these, so that you can work with statistically not-duplicated images, include these below:

• Manifest of case identifiers between BraTS and TCIA, NOTE: includes new series files with no TCIA DICOM equivalent: BraTS2021_MappingToTCIA.xlsx
• Spreadsheet list of cases and series used in prior year BraTS Challenges may also refer to these:
  • Multimodal Brain Tumor Segmentation Challenge 2018 (BraTS)
  • Multimodal Brain Tumor Segmentation Challenge 2019
  • Segmentation Labels and Radiomic Features for the Pre-operative Scans of the TCGA-GBM collection (BraTS-TCGA-GBM)
  • Segmentation Labels and Radiomic Features for the Pre-operative Scans of the TCGA-LGG collection (BraTS-TCGA-LGG)

• Spreadsheet list of new (NIfTI) series files with no TCIA DICOM equivalent: NotPreviouslyInTCIA.csv

• You might find these splits useful to navigate accidental duplication while making superset cohorts. These were processed for the BraTS Collection:

  • Segmentation Task (Training sets)

    • BraTS2021_ACRIN-FMISO-Brain_Seg-Task-Training.tcia

    • BraTS2021_TCGA-LGG_Seg-Task-Training.tcia

    • BraTS2021_TCGA-GBM_Seg-Task-Training.tcia

    • BraTS2021_IvyGAP_Seg-Task-Training.tcia

    • BraTS2021_CPTAC-GBM_Seg-Task-Training.tcia

    • BraTS2021_UPENN-GBM_Seg-Task-Training.tcia

  • Classification Task (Training sets)
    • BraTS2021_CPTAC-GBM_Class-Task-Training.tcia
    • BraTS2021_TCGA-GBM_Class-Task-Training.tcia
    • BraTS2021_IvyGAP_Class-Task-Training.tcia
    • BraTS2021_UPENN-GBM_Class-Task-Training.tcia
  • Segmentation Task (Validation sets)
    • BraTS2021_UPENN-GBM_Seg-Task-Validation.tcia
    • BraTS2021_IvyGAP_Seg-Task-Validation.tcia

    • BraTS2021_TCGA-LGG_Seg-Task-Validation.tcia

    • BraTS2021_CPTAC-GBM_Seg-Task-Validation.tcia

    • BraTS2021_TCGA-GBM_Seg-Task-Validation.tcia

  • Classification Task (Validation sets)
    • BraTS2021_UPENN-GBM_Class-Task-Validation.tcia
    • BraTS2021_IvyGAP_Class-Task-Validation.tcia
    • BraTS2021_TCGA-GBM_Class-Task-Validation.tcia
    • BraTS2021_CPTAC-GBM_Class-Task-Validation.tcia
  • We didn't split the UCSF-PDGM v1 data by BraTS task, but excerpted series in 299 cases are here:  BraTS2021_UCSF-PDGMv1 

Notes about Image Registration:

• Transformation matrices DICOM to NIfTI are not available.
• Segmentation task image volume have been set to x=y=240 voxels by z=155 voxels.
• All Radiogenomics Classifier task files are restored to original DICOM resolution & orientation (thus volume may vary).

Citations & Data Usage Policy

You are free to use and/or refer to the BraTS datasets in your own research, provided that you always cite the flagship manuscript (published or pre-published) resulting from the challenge as well as the following three manuscripts:

Additional Publication Resources:

The Collection authors suggest the below will give context to this dataset:

You are free to use and/or refer to the BraTS datasets in your own research. In addition, please be specific and also cite the following datasets that were part of this Challenge:

1. Bakas, S., Akbari, H., Sotiras, A., Bilello, M., Rozycki, M., Kirby, J., Freymann, J., Farahani, K., & Davatzikos, C. (2017). Segmentation Labels for the Pre-operative Scans of the TCGA-GBM collection [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2017.KLXWJJ1Q
2. Bakas, S., Akbari, H., Sotiras, A., Bilello, M., Rozycki, M., Kirby, J., Freymann, J., Farahani, K., & Davatzikos, C. (2017). Segmentation Labels for the Pre-operative Scans of the TCGA-LGG collection [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2017.GJQ7R0EF
3. Scarpace, L., Mikkelsen, T., Cha, S., Rao, S., Tekchandani, S., Gutman, D., Saltz, J. H., Erickson, B. J., Pedano, N., Flanders, A. E., Barnholtz-Sloan, J., Ostrom, Q., Barboriak, D., & Pierce, L. J. (2016). The Cancer Genome Atlas Glioblastoma Multiforme Collection (TCGA-GBM) (Version 4) [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2016.RNYFUYE9
4. Pedano, N., Flanders, A. E., Scarpace, L., Mikkelsen, T., Eschbacher, J. M., Hermes, B., Sisneros, V., Barnholtz-Sloan, J., & Ostrom, Q. (2016). The Cancer Genome Atlas Low Grade Glioma Collection (TCGA-LGG) (Version 3) [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2016.L4LTD3TK 
5. Calabrese, E., Villanueva-Meyer, J., Rudie, J., Rauschecker, A., Baid, U., Bakas, S., Cha, S., Mongan, J., & Hess, C. (2022). The University of California San Francisco Preoperative Diffuse Glioma MRI (UCSF-PDGM) (Version 1) [Data set].  The Cancer Imaging Archive.  https://doi.org/10.7937/tcia.bdgf-8v37 
6. Bakas, S., Sako, C., Akbari, H., Bilello, M., Sotiras, A., Shukla, G., Rudie, J. D., Flores Santamaria, N., Fathi Kazerooni, A., Pati, S., Rathore, S., Mamourian, E., Ha, S. M., Parker, W., Doshi, J., Baid, U., Bergman, M., Binder, Z. A., Verma, R., … Davatzikos, C. (2021). Multi-parametric magnetic resonance imaging (mpMRI) scans for de novo Glioblastoma (GBM) patients from the University of Pennsylvania Health System (UPENN-GBM) (Version 2) [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/TCIA.709X-DN49

Other Publications Using This Data

TCIA maintains a list of publications which leverage our data. If you have a manuscript you'd like to add please contact TCIA's Helpdesk.

Version 1 (Current): Updated 2023/05/23