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  • ROI Masks Defining Low-Grade Glioma Tumor Regions In the TCGA-LGG Image Collection (TCGA-LGG-Mask)

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Summary

Info
titleData Citation

Su, C., Vallières, M., & Bai, H. (2017). ROI Masks Defining Low-Grade Glioma Tumor Regions In the TCGA-LGG Image Collection [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2017.BD7SGWCA

Description

This collection contains 406 ROI masks in MATLAB format defining the low grade glioma (LGG) tumour region on T1-weighted (T1W), T2-weighted (T2W), T1-weighted post-contrast (T1CE) and T2-flair (T2F) MR images of 108 different patients from the TCGA-LGG collection. From this subset of 108 patients, 81 patients have ROI masks drawn for the four MRI sequences (T1W, T2W, T1CE and T2F), and 27 patients have ROI masks drawn for three or less of the four MRI sequences. The ROI masks were used to extract texture features in order to develop radiomic-based multivariable models for the prediction of isocitrate dehydrogenase 1 (IDH1) mutation, 1p/19q codeletion status, histological grade and tumour progression. 

Clinical data (188 patients in total from the TCGA-LGG collection, some incomplete depending on the clinical attribute), VASARI scores (188 patients in total from the TCGA-LGG collection, 178 complete) with feature keys, and source code used in this study are also available with this collection. Please contact Martin Vallières (mart.vallieres@gmail.com) of the Medical Physics Unit of McGill University for any scientific inquiries about this dataset.

Localtab Group

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Localtab
activetrue
titleData Access

Data Access

Tcia head license access


Data TypeDownload all or Query/FilterLicense
Images (DICOM, 9.03 GB)


Tcia button generator
urlhttps://wiki.cancerimagingarchive.net/download/attachments/24282890/doiJNLP-LxVyYE8d.tcia?api=v2

TCGA-LGG subset manifest for TCIA Radiology portal

Note: Limited Access. Please request both TCGA-LGG-Mask and TCGA-LGG in your Agreement.
Download requires the NBIA Data Retriever. 

Tcia restricted license


Clinical data (CSV)


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urlhttps://wiki.cancerimagingarchive.net/download/attachments/24282890/TCGA_clinical_INFO.csv?api=v2

TCGA_clinical_INFO.csv


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VASARI information (CSV)


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urlhttps://wiki.cancerimagingarchive.net/download/attachments/24282890/TCGA_vasari_INFO.csv?api=v2

TCGA_vasari_INFO.csv


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VASARI MR feature key (PDF)


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urlhttps://wiki.cancerimagingarchive.net/download/attachments/24282890/VASARI_MR_featurekey.pdf?api=v2

VASARI_MR_featurekey


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Matlab Segmentations (109 subjects, 406 files, MAT, ZIP, 18MB)
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urlhttps://www.cancerimagingarchive.net/wp-content/uploads/ROIdata-TCGA-LGG-20170131.zip



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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.

Collections Used in this Third Party Analysis

Below is a list of the Collections used in these analyses:

  • TCGA-LGG Note: Limited Access. You may need to request both TCGA-LGG-Mask and TCGA-LGG. 




Localtab
titleDetailed Description

Detailed Description

Per 2024/02/21, Access to this collection’s MATLAB ROI masks has been opened to the public. Please properly acknowledge this dataset when it is useful in your current or planned research project.




Localtab
titleCitations & Data Usage Policy

Citations & Data Usage Policy 

Tcia limited license policy


Info
titleData Citation

Su, C., Vallières, M., & Bai, H. (2017). ROI Masks Defining Low-Grade Glioma Tumor Regions In the TCGA-LGG Image Collection [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2017.BD7SGWCA



Info
titlePublication Citation
Hao

Zhou,

Martin

H., Vallières,

Harrison

M., Bai, H. X.

Bai

,

Chang

Su,

Haiyun

C., Tang,

Derek

H., Oldridge,

Zishu Zhang, Bo Xiao, Weihua Liao, Yongguang Tao, Jianhua Zhou, Paul Zhang, Li Yang;

D., Zhang, Z., Xiao, B., Liao, W., Tao, Y., Zhou, J., Zhang, P., & Yang, L. (2017). MRI features predict survival and molecular markers in diffuse lower-grade gliomas.

 Neuro Oncol 2017 now256. DOI:

Neuro-Oncology, 19(6), 862–870. https://doi.org/10.1093/neuonc/now256

Download

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  • Click the Download button above to save a ".tcia" manifest file to your computer, which you must open with the NBIA Data Retriever.  

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Info
titleTCIA Citation

Clark, K., Vendt, B., Smith, K., Freymann, J., Kirby, J., Koppel, P., Moore, S., Phillips, S., Maffitt, D., Pringle, M., Tarbox, L., & Prior, F. (2013). The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository. Journal of Digital Imaging, 26(6), 1045–1057. https://doi.org/10.1007/s10278-013-9622-7

Other Publications Using This Data

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




Localtab
titleVersions

Note: Per 2024/02/21, Access to this collection’s MATLAB ROI masks has been opened to the public. Please properly acknowledge this dataset when it is useful in your current or planned research project.

Version 1 (Current): 2017/03/17


Data TypeDownload all or Query/Filter
Images (DICOM, 9.03 GB)

Image Added

Clinical data (CSV)

Image Added

VASARI information (CSV)

ScoresImage Added

VASARI MR feature key (PDF)

KeysImage Added

Matlab Segmentations 

Please contact help@cancerimagingarchive.net to request access. 
More information is here and in the Detailed Description for this Collection

Matlab Segmentations (2.1 MB) - please see Special Instructions below to request access

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