MRQy-Quality-Measures | MRQy quality measures for TCIA MRI datasets
DOI: 10.7937/K9/TCIA.2020.JHZ2-T694 | Data Citation Required | 23 Views | 1 Citations | Analysis Result
| Location | Subjects | Size | Updated | |||
|---|---|---|---|---|---|---|
| Glioblastoma, Cervical Squamous Cell Carcinoma, Endocervical Adenocarcinoma | Brain, Cervix | 233 | Image quality assessment measures, Software/Source Code | 2020/07/16 |
Summary
Magnetic Resonance Imaging (MRI) quality assessment measures were generated for All MRI scans for each cohort were downloaded as DICOM files from TCIA and then processed via MRQy to compute quality measures for (a) interrogating the presence of site- or equipment-specific variations within a cohort, and (b) quantifying the impact of MRI artifacts to determine what pre-analytical corrections are needed. The MRQy output can be easily interrogated via the associated HTML5 based front-end, allowing for real-time filtering and visualization. MRQy is available for download at: http://github.com/ccipd/MRQy. Manifest files to download the DICOM images these results were derived from are available in the “Collections Used In This Analysis Result” table. In the figure, see (a) MRQy front-end interface for interrogating TCGA-GBM cohort. (b) Outlier dataset identified on the parallel coordinate chart for the CJV quality measure found to exhibit shading artifacts on (c) representative images, especially when compared to (d) a different dataset without this artifact. (e) t-SNE scatter plot of quality measures revealing presence of site-specific batch effects (colors correspond to different sites, note presence of site-specific clusters).
Data Access
Version 1: Updated 2020/07/16
| Title | Data Type | Format | Access Points | Subjects | License | |||
|---|---|---|---|---|---|---|---|---|
| TCGA-GBM MRQy results | Radiomic Feature | XLSX | CC BY 3.0 | |||||
| TCGA-CESC MRQy results | Radiomic Feature | XLSX | CC BY 3.0 | |||||
| CPTAC-GBM MRQy results | Radiomic Feature | XLSX | CC BY 3.0 |
Collections Used In This Analysis Result
| Title | Data Type | Format | Access Points | Subjects | License | |||
|---|---|---|---|---|---|---|---|---|
| Corresponding Original MR Images from TCGA-GBM and CPTAC-GBM | MR | DICOM | Requires NBIA Data Retriever |
179 | 179 | 179 | 6,087 | TCIA Restricted |
| Corresponding Original MR Images from TCGA-CESC | MR | DICOM | Requires NBIA Data Retriever |
CC BY 3.0 |
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.
- Source code is available on GitHub at: http://github.com/ccipd/MRQy.
Citations & Data Usage Policy
Data Citation Required: Users must abide by the TCIA Data Usage Policy and Restrictions. Attribution must include the following citation, including the Digital Object Identifier:
Data Citation |
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Sadri, A. R., Janowczyk, A., Verma, R., Antunes, J., Madabhushi, A., Tiwari, P., & Viswanath, S. (2020). MRQy quality measures for TCIA MRI datasets [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2020.JHZ2-T694 |
Acknowledgements
Research reported in this publication was supported by:
- National Cancer Institute of the National Institutes of Health under award numbers 1U24CA199374-01, R01CA202752-01A1, R01CA208236-01A1, R01 CA216579-01A1, R01 CA220581-01A1, 1U01 CA239055-01, 1F31CA216935-01A1, NCI 1U01CA248226-01
- National Institute for Biomedical Imaging and Bioengineering (1R43EB028736-01)
- National Center for Research Resources under award number 1 C06 RR12463-01
- VA Merit Review Award IBX004121A from the United States Department of Veterans Affairs Biomedical Laboratory Research and Development Service
- The DoD Breast Cancer Research Program Breakthrough Level 1 Award (W81XWH-19-1-0668)
- The DOD Prostate Cancer Idea Development Award (W81XWH-15-1-0558)
- The DOD Lung Cancer Investigator-Initiated Translational Research Award (W81XWH-18-1-0440)
- The DOD Peer Reviewed Cancer Research Program (W81XWH-16-1-0329, W81XWH-18-1-0404)
- Dana Foundation David Mahoney Neuroimaging Program
- The V Foundation Translational Research Award
- The Ohio Third Frontier Technology Validation Fund
- The Wallace H. Coulter Foundation Program in the Department of Biomedical Engineering
- The Clinical and Translational Science Award Program (CTSA) at Case Western Reserve University
Related Publications
Publications by the Dataset Authors
The authors recommended the following as the best source of additional information about this dataset:
Publication Citation |
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Sadri, A. R., Janowczyk, A., Zhou, R., Verma, R., Beig, N., Antunes, J., Madabhushi, A., Tiwari, P., & Viswanath, S. E. (2020). Technical Note: MRQy — An open‐source tool for quality control of MR imaging data. In Medical Physics (Vol. 47, Issue 12, pp. 6029–6038). Wiley. https://doi.org/10.1002/mp.14593 |
Research Community Publications
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