DICOM-SR-Breast-Clinical | DICOM SR of clinical data and measurement for breast cancer collections to TCIA
DOI: 10.7937/TCIA.2019.wgllssg1 | Page Accessibility: Public | Analysis Result
| Location | Subjects | Updated | |||
|---|---|---|---|---|---|
| Breast | Breast | 474 | DICOM SR descriptions of patient characteristics, histopathology, receptor status and clinical findings including measurements. | 05/28/2020 |
Summary
The Data Integration & Imaging Informatics (DI-Cubed) project explored the issue of lack of standardized data capture at the point of data creation, as reflected in the non-image data accompanying various TCIA breast cancer collections. The work addressed the desire for semantic interoperability between various NCI initiatives by aligning on common clinical metadata elements and supporting use cases that connect clinical, imaging, and genomics data. Accordingly, clinical and measurement data was imported into I2B2 and cross-mapped to industry standard concepts for names and values including those derived from BRIDG, CDISC SDTM, DICOM Structured Reporting models and using NCI Thesaurus, SNOMED CT and LOINC controlled terminology.
A subset of the standardized data was then exported from I2B2 to CSV and thence converted to DICOM SR according to the the DICOM Breast Imaging Report template [1] , which supports description of patient characteristics, histopathology, receptor status and clinical findings including measurements. The purpose was not to advocate DICOM SR as an appropriate format for interchange or storage of such information for query purposes, but rather to demonstrate that use of standard concepts harmonized across multiple collections could be transformed into an existing standard report representation. The DICOM SR can be stored and used together with the images in repositories such as TCIA and in image viewers that support rendering of DICOM SR content.
During the project, various deficiencies in the DICOM Breast Imaging Report template were identified with respect to describing breast MR studies, laterality of findings versus procedures, more recently developed receptor types, and patient characteristics and status. These were addressed via DICOM CP 1838, finalized in Jan 2019, and this subset reflects those changes.
DICOM Breast Imaging Report Templates available from: http://dicom.nema.org/medical/dicom/current/output/chtml/part16/sect_BreastImagingReportTemplates.html
Data Access
Please see the Detailed Description tab for related imaging Search & Download manifests.
Please contact [email protected] with any questions regarding usage.
| Title | Data Type | Format | Access Points | License | |||
|---|---|---|---|---|---|---|---|
| Combined SR across 4 collections (note, no pixel data in SR) | DICOM | Requires NBIA Data Retriever |
1,292 | CC BY 3.0 | |||
| SR for TCGA-BRCA - | Requires NBIA Data Retriever |
164 | CC BY 3.0 | ||||
| SR for ISPY1 - , | Requires NBIA Data Retriever |
845 | CC BY 3.0 | ||||
| SR for BREAST-DIAGNOSIS - , | Requires NBIA Data Retriever |
94 | CC BY 3.0 | ||||
| SR for Breast-MRI-NACT-Pilot - , | Requires NBIA Data Retriever |
189 | CC BY 3.0 |
Collections Used in this Third Party Analysis
| Title | Data Type | Format | Access Points | License | |||
|---|---|---|---|---|---|---|---|
| TCGA-BRCA Images | DICOM | Requires NBIA Data Retriever |
CC BY 3.0 | ||||
| BREAST-DIAGNOSIS Images | DICOM | Requires NBIA Data Retriever |
CC BY 3.0 | ||||
| ISPY1 Images and Segmentations | DICOM | Requires NBIA Data Retriever |
CC BY 3.0 | ||||
| Breast-MRI-NACT-Pilot Images and Segmentations | DICOM | Requires NBIA Data Retriever |
CC BY 3.0 |
Detailed Description
TCIA imaging source files for these SR. You can explore further with the “3rd-Party Analysis Results” radio button options at the lower left of the Search screen.
Citations & Data Usage Policy
Data Citation |
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Clunie D., Hickman H., Ver Hoef W., Hastak S., Wagner U., Helton E. (2019). DICOM SR of clinical data and measurement for breast cancer collections to TCIA [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/TCIA.2019.wgllssg1 |
Publication Citation |
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Clunie, D., Hickman, H., Ver Hoef, W., Hastak, S., Evans, J., Neville, J., & Wagner, U. (2020). Observations from the Data Integration and Imaging Informatics (DI-Cubed) Project. MDPI AG. https://doi.org/10.20944/preprints202008.0474.v1 |
TCIA Citation |
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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. In Journal of Digital Imaging (Vol. 26, Issue 6, pp. 1045–1057). Springer Science and Business Media LLC. https://doi.org/10.1007/s10278-013-9622-7 |
Other Publications Using This Data
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