SummaryThe Cancer Genome Atlas-Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma (TCGA-CESC) data collection is part of a larger effort to enhance the TCGA data set with characterized radiological images. The Cancer Imaging Program (CIP), with the cooperation of several of the TCGA tissue-contributing institutions, has archived a large portion of the radiological images of the CESC cases.
Clinical, genetic, and pathological data resides in the TCGA data portal, while the radiological data is stored on The Cancer Imaging Archive (TCIA). The data utilizes the same TCGA patient identifiers in both repositories, allowing researchers to explore the correlations between tissue genotype and radiological phenotype. This collection within TCIA is related to the CESC disease type within TCGA.
CIP TCGA Radiology Initiative
The CIP is supporting multiple projects within the academic community to encourage cross disciplinary research, which utilizes the data provided in these resources. However, a TCGA-CESC Phenotype Research Group has not yet formed.
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The TCGA data portal has extensive clinical and genomic data, which can be matched to the patient identifiers on the images here in TCIA. Below is a snapshot of clinical data extracted on 12/xx/2014.
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Explanations of the clinical data can be found on the Biospecimen Core Resource Clinical Data Forms linked below:
A Note about TCIA and TCGA Subject Identifiers and Dates
Subject Identifiers: a subject with radiology images stored in TCIA is identified with a Patient ID that is identical to the Patient ID of the same subject with demographic, clinical, pathological, and/or genomic data stored in TCGA. For each TCGA case, the baseline TCGA imaging studies found on TCIA are pre-surgical.
Dates: TCIA and TCGA handle dates differently, and there are no immediate plans to reconcile:
- TCIA Dates: dates (be they birth dates, imaging study dates, etc.) in the Digital Imaging and Communications in Medicine (DICOM) headers of TCIA radiology images have been offset by a random number of days. The offset is a number of days between 3 and 10 years prior to the real date that is consistent for each TCIA image-submitting site and collection, but that varies among sites and among collections from the same site. Thus, the number of days between a subject’s longitudinal imaging studies are accurately preserved when more than one study has been archived while still meeting HIPAA requirements.
- TCGA Dates: the patient demographic and clinical event dates are all the number of days from the index date, which is the actual date of pathologic diagnosis. So all the dates in the data are relative negative or positive integers, except for the “days_to_pathologic_diagnosis” value, which is 0 – the index date. The years of birth and diagnosis are maintained in the distributed clinical data file. The NCI retains a copy of the data with complete dates, but those data are not made available.With regard to other TCGA dates, if a date comes from a HIPAA “covered entity’s” medical record, it is turned into the relative day count from the index date. Dates like the date TCGA received the specimen or when the TCGA case report form was filled out are not such covered dates, and they will appear as real dates (month, day, and year).
We would like to acknowledge the individuals and institutions that have provided data for this collection:.
Barretos Cancer Hospital, Barretos, São Paulo, Brazil – Special Thanks to Fabiano Rubião Lucchesi, MD and Natália Del Angelo Aredes.