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MRQy-Quality-Measures | MRQy quality measures for TCIA MRI datasets

DOI: 10.7937/K9/TCIA.2020.JHZ2-T694 | Data Citation Required | Analysis Result

Cancer Types Location Subjects Related Collections Size Supporting Data Updated
Glioblastoma, Cervical Squamous Cell Carcinoma, Endocervical Adenocarcinoma Brain, Cervix 233 118.28KB Image quality assessment measures, Software/Source Code 2020/07/16


Magnetic Resonance Imaging (MRI) quality assessment measures were generated for

  1. T1-weighted post-contrast axial MRI sequences from 133 TCGA-GBM subjects
  2. T1-weighted post-contrast axial MRI sequences from 46 CPTAC-GBM subjects
  3. Both T1- and T2-weighted axial MRI sequences from 54 TCGA-CESC subjects

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:  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 Studies Series Images License
TCGA-GBM MRQy results XLSX CC BY 3.0

Collections Used In This Analysis Result

Title Data Type Format Access Points Subjects Studies Series Images License
Corresponding Original MR Images from TCGA-GBM and CPTAC-GBM MR DICOM 179 179 179 6,087 TCIA Restricted
Corresponding Original MR Images from TCGA-CESC MR DICOM CC BY 3.0

Additional Resources For This Dataset

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

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.

Detailed Description

The spreadsheets provided are derived analyses from subsets of images from the TCGA-GBM, CPTAC-GBM, and TCGA-CESC collections. To download the original corresponding images for your own analysis please see the “Collections Used In This Analysis Result” table.


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

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.

Collections Used In This Analysis Result

Related Collections