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 the 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.  You can join the CPTAC Imaging Special Interest Group to be notified of webinars & data releases, collaborate on common data wrangling tasks and seek out partners to explore research hypotheses!

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 (Subjects)
CPTAC-AMLAcute Myeloid LeukemiaBone Marrow----38

CPTAC-CCRCC

Clear Cell Carcinoma

Kidney

CT

40

222

CPTAC-CM

Cutaneous Melanoma

Skin

MR, CT, CR

3

73

CPTAC-GBM

Glioblastoma Multiforme

Brain

CT, MR

37

120
CPTAC-HNSCCHead and Neck Squamous Cell CarcinomaHead-NeckCT, SC29110

CPTAC-LSCC

Squamous Cell Carcinoma

Lung

CR, CT, DX, PT

20

114

CPTAC-LUAD

Adenocarcinoma

Lung

CT, MR, PT, CR

19

165

CPTAC-PDA

Ductal Adenocarcinoma

Pancreas

CT, MR, DX, CR

47

85
CPTAC-SARSarcomasSoft TissueCT,MR371

CPTAC-UCEC

Corpus Endometrial Carcinoma

Uterus

CT, MR, PT, CR

35

181

Quick introduction to the TCIA CPTAC Pathology Portal:


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 can be accessed using the following links:

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_18Koutroukides TA1