GDC Data Portal – Clinical and Genomic Data

The GDC Data Portal has extensive clinical and genomic data which can be matched to the patient identifiers of the images here in TCIA.  Below is a snapshot of clinical data extracted on 1/5/2016.

• TCGA-KIRP Clinical Data.zip

Verbose explanations of the clinical data can be found on the Biospecimen Core Resource Clinical Data Forms linked below:

• Kidney Case Quality Control Form
• Kidney Enrollment Form
• Kidney Follow-Up Form

A note about TCIA and TCGA Subject Identifiers and Dates

Subject Identifiers:  a subject with radiology images stored in The Cancer Imaging Archive (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 the Cancer Genome Atlas (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 birthdates, imaging study dates, etc.) in the 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number of days between a subject’s longitudinal imaging studies are accurately preserved when more than one study has been archived while still meeting HIPAA requirements.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 Dx. 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 Dx 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, year).

Publications by the Dataset Authors

The authors recommended the following as the best source of additional information about this dataset:

No other publications were recommended by dataset authors.

Research Community Publications

TCIA maintains a list of publications that leveraged this dataset. If you have a manuscript you’d like to add please contact TCIA’s Helpdesk.

Version 3: Updated 2017/01/30

Added imaging data for 2 new subjects.

Version 2: Updated 2016/01/05

Extracted latest release of clinical data (TXT) from the GDC Data Portal.

Version 1: Updated 2014/10/09