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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

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Put Collection Abstract hereThis 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:

  • Hospital/Institution Name city, state, country - Special thanks to First Last Names, degree PhD, MD, etc from the Department of xxxxxx, Additional Names from same location.

  • Continue with any names from additional submitting sites if collection consists of more that one

    NIH/NINDS: R01NS042645, NIH/NCI: U24CA189523, NIH/NCATS: UL1TR001878, and the ITMAT of the University of Pennsylvania.

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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. 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: 10.1007/s10278-013-9622-7

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