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Localtab Group


Localtab
activetrue
titleData Access

Data Access

Click the Download button to save a ".tcia" manifest file to your computer, which you must open with the NBIA Data Retriever. Click the Search button to open our Data Portal, where you can browse the data collection and/or download a subset of its contents.

Data TypeDownload all or Query/Filter
Images and Segmentations (DICOM, 19.5 GB)

 

Clinical and DFS Metadata (XLS)
Clinical, pathologic, and recurrence free survival data for the UCSF pilot NACT study
 ISPY-1 DCE MRI Data Sharing Dictionary_v2

Click the Versions tab for more info about data releases.

Third Party Analyses of this Dataset

TCIA encourages the community to publish your analyses of our datasets. Below is a list of such third party analyses published using this Collection:


Localtab
titleDetailed Description

Detailed Description

Collection Statistics


Modalities

MR

Number of PatientsParticipants

64

Number of Studies

189

Number of Series

2228

Number of Images

99058

Image Size (GB)19.5


QIN BMMR Challenge

Subsets of this collection are being used as the training data set for the NCI Quantitative Imaging Network (QIN) Breast MRI Metrics of Response (BMMR) challenge. To download these subsets use the following links:

Download LinkDescription
QIN_BMMR_Training DCE_Derived_HRknownn=47 subject training set for bMMR Challenge, DCE series and derived maps and segmentations
QIN_BMMR_Training DCEonly_HRknownn=47 subject training set for BMMR Challenge, primary DCE series only
QIN_BMMR_Training AllSeries_HRknownn=47 subject training set for BMMR Challenge, all acquired and derived series
QIN_BMMR_Training AllSeries_AllSubjects_n64n=64 training set for BMMR Challenge, all series all patients
QIN_BMMR_Training DCEonly_AllSubjects_n64n=64 training set for BMMR Challenge, Original DCE series only, all patients
QIN_BMMR_Training DCE_Derived_AllSubjects_n64n=64 training set for BMMR Challenge, DCE series and derived maps and segmentati, all patients
BMMR_Training_Tissue_DSO_AllSubjectsBreast tissue segmentations for all studies in Breast-MRI-NACT-Pilot collection
BMMR_Training_Tumor_DSO_AllSubjectsBreast enhancing tumor segmentations for all studies in Breast-MRI-NACT-Pilot collection

Included image data

Original and time-of-scan derived images.

Original DCE images are contained in a single series for each study. For the majority of studies (174 of 198) this series contains only the 3 time-points described above. 12 studies have 1 additional post-contrast acquisition for a total of 4 phases, while 2 studies, UCSF_BR_36, visit 1, and UCSF_BR_42, visit 1, have 4 and 6 post-injection phases respectively.

NOTE: Study UCSF_BR_18, Visit 1, has two pre-contrast acquisitions and two post-contrast phases. Use of the 2nd pre-contrast phase for time-point t0 is recommended. All other studies have a single pre-contrast phase.

Other original image series present in the collection include 3-plane scout images for each study, and for some studies T2 weighted images and diffusion weighted images. In addition, some studies may contain derived images from the DCE series including subtraction images and projection images.

Tumor volumetric analysis images.

The primary predictor variable for the original study, functional tumor volume (FTV), was measured from contrast-enhanced images using the signal enhancement ratio (SER) method. Four derived series per study from this analysis are included in this collection:

Series ID

(x=original DCE series ID)

Object TypeSeries description
x1000

MR

SER*1000 map1
x1001MRPEearly map
x2000SegmentationPEearly segmentation for SER map calculation2
x2001SegmentationBreast tissue segmentation for PEearly map calculation3
  1. SER true values range from 0.0 to 3.0. These are scaled by 1000 in order to store in integer format. DICOM viewers utilizing the rescale-slope field (0028,1053) will display the true SER values.
  2. The PEearly segmentation is based on both the breast tissue segmentation (background level threshold, see next footnote) and an early percent enhancement threshold of 70%.
  3. The breast tissue segmentation is based on an intensity threshold applied to the pre-contrast image. Threshold was set to 60% of the 95% percentile intensity within the tumor region volume-of-interest. Coordinates of the VOI are stored in all derived DICOM images using private fields (0117, 10a1) and (0117, 10a2) for the starting and ending voxel coordinates respectively.

Further information on later NACT Breast Cancer MRI studies can be found at:


Metadata

Excel workbook with clinical data and disease free survival (DFS) data for the 64 patients in this study:

Clinical and DFS Data (xls) 

DICOM data dictionary defining fields included in the 0x0117 private group for PE/SER calculation parameters and results, and deduced DCE scan timing information. NOTE: Dictionary contains sections for attributes from the I-SPY 1 TRIAL which are not included in this pilot study.:

ISPY-1 DCE MRI Data Sharing Dictionary_v2


Localtab
titleCitations & Data Usage Policy

Citations & Data Usage Policy 

This collection is freely available to browse, download, and use for commercial, scientific and educational purposes as outlined in the Creative Commons Attribution 3.0 Unported License. See TCIA's Data Usage Policies and Restrictions for additional details. Questions may be directed to help@cancerimagingarchive.net.

Please be sure to include the following citations in your work if you use this data set:

Info
titleUCSF Pilot Data Citation

David Newitt, Nola Hylton, "Single site breast DCE-MRI data and segmentations from patients undergoing neoadjuvant chemotherapy", The Cancer Imaging Archive (2016).  DOI: 10.7937/K9/TCIA.2016.QHsyhJKy


Info
titleTCIA 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: 10.1007/s10278-013-9622-7

Other Publications Using This Data

1: Partridge SC, Gibbs JE, Lu Y, Esserman LJ, Tripathy D, Wolverton DS, Rugo HS, Hwang ES, Ewing CA, Hylton NM. MRI measurements of breast tumor volume predict response to neoadjuvant chemotherapy and recurrence-free survival. AJR Am J Roentgenol. 2005 Jun;184(6):1774-81. PubMed PMID: 15908529.

2: Li KL, Partridge SC, Joe BN, Gibbs JE, Lu Y, Esserman LJ, Hylton NM. Invasive breast cancer: predicting disease recurrence by using high-spatial-resolution signal enhancement ratio imaging. Radiology. 2008 Jul;248(1):79-87. doi: 10.1148/radiol.2481070846. PubMed PMID: 18566170.

3: Hattangadi J, Park C, Rembert J, Klifa C, Hwang J, Gibbs J, Hylton N. Breast stromal enhancement on MRI is associated with response to neoadjuvant chemotherapy. AJR Am J Roentgenol. 2008 Jun;190(6):1630-6. doi: 10.2214/AJR.07.2533. PubMed PMID: 18492917.

4: Li KL, Henry RG, Wilmes LJ, Gibbs J, Zhu X, Lu Y, Hylton NM. Kinetic assessment of breast tumors using high spatial resolution signal enhancement ratio (SER) imaging. Magn Reson Med. 2007 Sep;58(3):572-81. PubMed PMID: 17685424; PubMed Central PMCID: PMC4508009.

5: Jones EF, Sinha SP, Newitt DC, Klifa C, Kornak J, Park CC, Hylton NM. MRI enhancement in stromal tissue surrounding breast tumors: association with recurrence free survival following neoadjuvant chemotherapy. PLoS One. 2013 May 7;8(5):e61969. doi: 10.1371/journal.pone.0061969. Print 2013. PubMed PMID: 23667451; PubMed Central PMCID: PMC3646993.

TCIA maintains a list of publications which leverage our data. If you have a publication you'd like to add please contact the TCIA Helpdesk.


Localtab
titleVersions

Version 2 (Current): Updated 2016/04/16

 deleted 4 duplicate DICOM series:

1.3.6.1.4.1.14519.5.2.1.7695.2311.274969196687715738621052447111

1.3.6.1.4.1.14519.5.2.1.7695.2311.790802609328661944330528970451

1.3.6.1.4.1.14519.5.2.1.7695.2311.869262000688001356814712906748

1.3.6.1.4.1.14519.5.2.1.7695.2311.914480028549654883806586724682

Data TypeDownload all or Query/Filter
Images (DICOM, 19.5 GB)

 

(Download requires the NBIA Data Retriever.)

Clinical and DFS Metadata (XLS)
Clinical, pathologic, and recurrence free survival data for the UCSF pilot NACT study
 ISPY-1 DCE MRI Data Sharing Dictionary_v2

Version 1: Updated 2016/01/30

Data TypeDownload all or Query/Filter
Images (DICOM, 19.5 GB)

 

(Download requires the NBIA Data Retriever.)

Clinical and DFS Metadata (XLS)
Clinical, pathologic, and recurrence free survival data for the UCSF pilot NACT study
 ISPY-1 DCE MRI Data Sharing Dictionary_v2



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