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  • Multi-parametric magnetic resonance imaging (mpMRI) scans for de novo Glioblastoma (GBM) patients from the University of Pennsylvania Health System (UPENN-GBM)

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Summary

Excerpt

This collection comprise multi-parametric magnetic resonance imaging (mpMRI) scans for de novo Glioblastoma (GBM) patients from the Hospital of the University of Pennsylvania, coupled with patient demographics, clinical outcome (e.g., overall survival, progression free survival, molecular alterations of 50 clinically-relevant genes based on a novel next generation sequencing panel, computer-aided and manually-corrected segmentation labels of multiple histologically distinct tumor sub-regions, computer-aided and manually-corrected segmentations of the whole brain, a rich panel of radiomic features along with their corresponding co-registered mpMRI volumes in NIfTI format. Pre-operative scans defined via radiological assessment for prior surgical instrumentation. Scans were initially skull-stripped and co-registered, before their tumor segmentation labels were produced by an automated computational method. These segmentation labels were revised and any label misclassifications were manually corrected/approved by an expert board-certified neuroradiologists. The final labels were used to extract a rich panel of imaging features, including intensity, volumetric, morphologic, histogram-based and textural parameters, as well as spatial information and diffusion properties extracted from glioma growth models. The generated computer-aided and manually-revised labels enable quantitative computational and clinical studies without the need to repeat manual annotations whilst allowing for comparison across studies. They can also serve as a set of manually-annotated gold standard labels for performance evaluation in computational challenges. The provided panel of radiomic features may facilitate research integrative of the molecular characterization offered, and hence allow associations with molecular markers (radiogenomic biomarker research), clinical outcomes, treatment responses and other endpoints, by researchers without sufficient computational background to extract such features.

Acknowledgements

We would like to acknowledge the individuals and institutions that have provided data for this collection:

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activetrue
titleData Access

Data Access

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Localtab
titleDetailed Description

Detailed Description

Image Statistics


Modalities

MR

Number of Patients

600

Number of Studies

1200

Number of Series


Number of Images


Images Size (GB)




Localtab
titleCitations & Data Usage Policy

Citations & Data Usage Policy

Tcia license 4 international

This is a limited access data set and is only available to members of UPENN. If you are a member of UPENN and would like to request access, please submit a CCP proposal to the Coordinating Committee. Upon receiving access you may only use it for the purposes outlined in your proposal. Questions may be directed to help@cancerimagingarchive.net.

Info
titleData Citation

Bakas, S., Sako, C., Akbari, H., Rathore, S., Kazerooni, A., Sotiras, A., Bilello, M., Mohan, S., Shukla, G., Pati, S., Mamourian, E., Ha, S., Nasrallah, M., O’Rourke, D., Davatzikos, C. (2020).  Data From UPENN-GBM. The Cancer Imaging Archive. DOI: 


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titlePublication Citation

We ask on the proposal form if they have ONE traditional publication they'd like users to cite.


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, Volume 26, Number (6, December, 2013, pp 1045-1057. DOI: ), 1045–1057. https://doi.org/10.1007/s10278-013-9622-7

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Localtab
titleVersions

Version 1 (Current): 2020/05/26

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Images (DICOM, xx.x GB)

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