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Description

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.

Data Type Download all or Query/Filter

Combined SR across 4 collections (DICOM, 1292 files, 10.0 Mb)

(note, no pixel data in SR)

Click to download Combined SR across 4 collections

Click the Download  button to save a ".tcia" manifest file to your computer, which you must open with the  NBIA Data Retriever

SR for TCGA-BRCA - 164 files 1.2Mb

Click to download TCGA-BRCA SR

SR for ISPY-1 - 845 files , 6.6Mb

Click to download ISPY1 SR

SR for BREAST-DIAGNOSIS - 94 files, 750kB

Click to download BREAST-DIAGNOSIS SR

SR for Breast-MRI-NACT-PILOT - 189 files, 1.4Mb

Click to download Breast-MRI-NACT-Pilot SR

Please contact help@cancerimagingarchive.net  with any questions regarding usage.

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.

Collection Download or Query/Filter

TCGA-BRCA

ISPY1

BREAST-DIAGNOSIS

Breast-MRI-NACT-PILOT

Citations & Data Usage Policy 

Users of this data must abide by the Creative Commons Attribution 3.0 Unported License under which it has been published. Attribution should include references to the following citations:

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

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. 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; https://doi.org/10.1007/s10278-013-9622-7

In addition to the dataset citation above, please be sure to cite the following if you utilize these data in your research:

Publication Citation

coming soon

Other 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.

Version 1 (Current): 2020/05/26

Data Type Download all or Query/Filter

Combined SR across 4 collections (DICOM, 1292 files, 10.0 Mb)

(note, no pixel data in SR)

Click the Download  button to save a ".tcia" manifest file to your computer, which you must open with the  NBIA Data Retriever

SR for TCGA-BRCA - 164 files 1.2Mb

Click to download TCGA-BRCA SR

SR for ISPY-1 - 845 files , 6.6Mb

Click to download ISPY1 SR

SR for BREAST-DIAGNOSIS - 94 files, 750kB

Click to download BREAST-DIAGNOSIS SR

SR for Breast-MRI-NACT-PILOT - 189 files, 1.4Mb

Click to download Breast-MRI-NACT-Pilot SR





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