NCI announced resources for the Clinical Proteomic Tumor Analysis Consortium (CPTAC) (http://proteomics.cancer.gov/) aimed at integrating proteomic research with genomics so as to create a more unified understanding of tumor biology. As the CPTAC available tissue resources began to ramp up, a few legacy TCGA genetic-focused cases -- CPTAC analyzed -- were noted to have diagnostic images that are presently accessible on The Cancer Imaging Archive (TCIA). The NCI Cancer Imaging Program is offering those specific cases, "shared list" downloadable as an opportunity for researchers to explore what such combined research resources might offer. They consist of 28 ovarian (TCGA-OV) and 14 breast (TCGA-BRCA) cases. Those imaging cases are easily downloadable as tumor specific groups from TCIA on the drop-down Tool-menu “shared lists” under the separate titles of: CPTAC Breast Analyzed, and CPTAC OV Analyzed. Those image cases can be down-loaded by entering the afore-mentioned “shared lists” on https://public.cancerimagingarchive.net/ncia/searchCustomList.jsf Their case matched CPTAC Proteomic Analysis Data is down-loadable from: https://cptac-data-portal.georgetown.edu/cptacPublic/ The case specific Clinical Data that matches each of those TCIA archive image cases are attached here as XLS sheets.
CPTAC and TCGA Collections Publication Guidelines
TCIA publication guidelines, derived from the policy outlined by TCGA, must be followed in addition to the TCGA Data Portal publication policy: http://cancergenome.nih.gov/abouttcga/policies/publicationguidelines.
There are no limitations on publications containing analyses using TCGA-linked imaging data sets, if the data set meets one of the following three freedom-to-publish criteria:
- A marker paper has been published on that tumor type; or
- It has been 12 months since the authors’ DICOM data for 100 cases of a given tumor type have been published on TCIA; or
- The author receives specific approval from the TCGA ISS groups representing any relevant tumor types.
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.