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The National Cancer Institute’s Clinical Proteomic Tumor Analysis Consortium (CPTAC) is a national effort to accelerate the understanding of the molecular basis of cancer through the application of large-scale proteome and genome analysis, or proteogenomics. Data (genomics, proteomics, imaging), assays, and reagents are made available to the public as a Community Resource to accelerate cancer research and advance patient care. CPTAC has been conducted in multiple phases.  For their phase 3 prospective data collection activities TCIA has partnered with CPTAC to host both the radiology and pathology imaging data generated by the project. The other data types will be hosted in separate databases managed by the CPTAC program.  TCIA will provide links to these resources as they become publicly available.

CPTAC Phase 3 Histopathology and Radiology Imaging

CPTAC imaging data will be made available on a quarterly release schedule.  Data currently available includes:

Collection

Cancer Type

Location

Radiology Modalities

Radiology (Subjects)

Pathology (Slides)

CPTAC-CCRCC

Clear Cell Carcinoma

Kidney

CT

21

777

CPTAC-CM

Cutaneous Melanoma

Skin

MR, CT, CR

2

225

CPTAC-GBM

Glioblastoma Multiforme

Brain

CT, MR

27

275
CPTAC-HNSCCHead and Neck Squamous Cell CarcinomaHead-NeckCT, SC10232

CPTAC-LSCC

Squamous Cell Carcinoma

Lung

CR, CT, DX, PT

4

378

CPTAC-LUAD

Adenocarcinoma

Lung

CT, MR, PT, CR

11

769

CPTAC-PDA

Ductal Adenocarcinoma

Pancreas

CT, MR, DX, CR

43

278

CPTAC-UCEC

Corpus Endometrial Carcinoma

Uterus

CT, MR, PT, CR

33

657

A tutorial walk-through of the histopathology review system is available here.

CPTAC Phase 2 - TCGA Cancer Proteome Studies

TCIA did not formally participate in CPTAC phase 2, but a small subset of the radiology imaging studies for this cohort are available due to overlap with NIH's Cancer Genome Atlas activity.  Specifically there are 28 ovarian (TCGA-OV) and 14 breast (TCGA-BRCA) cases in TCIA which have corresponding CPTAC phase 2 proteomic analysis data.  The Proteomic Analysis Data is available at: https://cptac-data-portal.georgetown.edu/cptacPublic/.  


Images and Clinical Data Downloads

These subsets of radiology images have been saved as Shared Lists using the following names:

  • CPTAC Proteomic Breast TCIA TCGA cases
  • CPTAC Proteomic Ovarian TCIA TCGA cases

The clinical data for these subjects can be found in these spreadsheets:

References

An early CPTAC publication which reports on a more comprehensive collection of cases from those TCGA tumor data collections (BRCA and OV) can be found at: “Comprehensive quantitative analysis of ovarian and breast cancer tumor peptidomes”. Xu Z, et al., J Proteome Res. 2015 Jan 2;14(1):422-33. doi: 10.1021/pr500840w.

An excellent review of proteomic biomarkers is the publication: "Proteomics in cancer biomarkers discovery: challenges and applications."  Sallam RM1. Dis Markers. 2015;2015:321370. doi: 10.1155/2015/321370.

Also: Identification of protein biomarkers in human serum using iTRAQ and shotgun mass spectrometry  Methods Mol Biol. 2013;1061:291-307. doi: 10.1007/978-1-62703-589-7_18. Koutroukides TA1


 

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