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DICOM-SR-BREAST-CLINICAL

DICOM-SR-Breast-Clinical | DICOM SR of clinical data and measurement for breast cancer collections to TCIA

DOI: 10.7937/TCIA.2019.wgllssg1 | Data Citation Required | Analysis Result

Cancer Types Location Subjects Related Collections Size Supporting Data Updated
Breast Cancer Breast 474 19.82MB DICOM SR descriptions of patient characteristics, histopathology, receptor status and clinical findings including measurements. 2020/05/26

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

Version 1: Updated 2020/05/26

Title Data Type Format Access Points Subjects Studies Series Images License
Combined SR across 4 collections SR DICOM
Download requires NBIA Data Retriever
 474 1,285 1,291 1,291 CC BY 3.0
SR for TCGA-BRCA SR DICOM
Download requires NBIA Data Retriever
 139 164 164 164 CC BY 3.0
SR for ISPY1 SR DICOM
Download requires NBIA Data Retriever
 221 845 845 845 CC BY 3.0
SR for BREAST-DIAGNOSIS SR DICOM
Download requires NBIA Data Retriever
 50 88 94 94 CC BY 3.0
SR for Breast-MRI-NACT-Pilot SR DICOM
Download requires NBIA Data Retriever
 64 189 189 189 CC BY 3.0

Collections Used In This Analysis Result

Title Data Type Format Access Points Subjects Studies Series Images License
TCGA-BRCA Images MG, MR DICOM 139 164 1,877 230,167 CC BY 3.0
BREAST-DIAGNOSIS Images MG, CT, MR, PT DICOM 88 148 429 105,050 CC BY 3.0
ISPY1 Images and Segmentations SEG, MR DICOM 222 847 9,032 387,680 CC BY 3.0
Breast-MRI-NACT-Pilot Images and Segmentations SEG, MR DICOM 64 189 2,224 98,936 CC BY 3.0

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

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

Detailed Description

You can download all results at once through (Combined SR across 4 collections (DICOM, 1292 files, 10.0 Mb) (note, no pixel data in SR)) or in chunks:

  • SR for TCGA-BRCA – 164 files 1.2Mb
  • SR for ISPY1 – 845 files , 6.6Mb
  • SR for BREAST-DIAGNOSIS – 94 files, 750kB
  • SR for Breast-MRI-NACT-Pilot – 189 files, 1.4Mb

Publications Using This Data

TCIA maintains a list of publications that leverage TCIA data. If you have a manuscript you’d like to add please contact the TCIA Helpdesk.

Publication Citation

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

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

Collections Used In This Analysis Result

Related Collections