Total Cases by Site

Total Cases by Modality and Site

GDC Data Portal – Clinical and Genomic Data

The Genomic Data Commons (GDC) 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 1/5/2016:

• TCGA-HNSC Clinical Data.zip

Case report forms for the  clinical data collected by TCGA can be found on the Biospecimen Core Resource Clinical Data Forms linked below:

• Head and Neck Case Quality Control Form
• Head and Neck Enrollment Form
• Head and Neck Follow-Up Form

The contents of the clinical_patient file as of June 29, 2014, for cases whose imaging are archived on TCIA are here.

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number of days between a subject’s longitudinal imaging studies are accurately preserved when more than one study has been archived while still meeting HIPAA requirements.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).

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 5: Updated 2020/05/29

Updated clinical data link with latest spreadsheets from GDC. Added new biomedical spreadsheets from GDC.

Version 4: Updated 2018/08/30

Added new DICOM images.

Version 3: Updated 2017/03/30

Added new DICOM images.

Version 2: Updated 2016/01/05

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

Version 1: Updated 2014/11/26