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-READ Clinical Data.zip

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

• Colon-Rectum Case Quality Control Form
• Colon-Rectum Enrollment Form
• Colon-Rectum Follow-Up Form

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 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 (birth dates, imaging study dates, etc.) in the headers of TCIA’s Digital Imaging and Communications in Medicine (DICOM) radiology images have been offset by a random number of days between 3 and 10 years prior to the real date for each TCIA image-submitting site and collection. This varies among sites and among collections. Thus, the number of days between a subject’s longitudinal imaging studies is accurately preserved when more than one study has been archived while still meeting HIPAA requirements.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 the number of days from the index date, which is the actual date of pathologic diagnoses. All 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 National Cancer Institute retains a copy of the data with complete dates, but those data are not made available. 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 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:

• University of North Carolina - Special thanks to J. Keith Smith, M.D., Ph.D. and Shanah Kirk from the Department of Radiology. 

• Brigham & Women's Hospital Boston, MA - Special thanks to Cheryl A. Sadow, MD and Seth Levine
  
  

TCIA maintains a list of publications which leverage our data. If you have a manuscript you’d like to add please contact TCIA’s Helpdesk.

TCIA encourages the community to publish your analyses of our datasets. Below is a list of such third party analyses published using this Collection:

• Tumor-Infiltrating Lymphocytes Maps from TCGA H&E Whole Slide Pathology Images

Version 2: Updated 2016/01/05

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

Version 1: Updated 2014/05/21