TCGA-CESC
The Cancer Genome Atlas Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma Collection (TCGA-CESC)
Pre-surgical clinical pelvic MRI of 54 patients with cervical squamous cell carcinoma or endocervical adenocarcinoma from The Cancer Genome Atlas, whose patient IDs match the TCGA clinical, genomic and histopathology data.
Overview
TCGA-CESC is the imaging arm of The Cancer Genome Atlas project on cervical squamous cell carcinoma and endocervical adenocarcinoma, hosted by The Cancer Imaging Archive. It contains clinical MR scans of TCGA patients whose tumor tissue was profiled by TCGA. The patient IDs on the images match those in TCGA, so each scan can be joined with the clinical, genomic and histopathology records held in the NCI Genomic Data Commons. This makes the collection usable for radiogenomic work that relates imaging appearance to tumor genotype and outcome.
Composition
The collection holds 54 patients with 57 MR studies (three patients have two studies), 488 DICOM series and 19,135 images, about 9.5 GB in total. In the DICOM headers 53 patients are recorded as female and one as male, which conflicts with the diagnosis and is likely a header error. Only 32 patients have an age in the header; they were 26 to 79 years old at the scan, with a median of 51. A January 2016 snapshot of TCGA clinical data is linked from the collection page, and the current release adds newer clinical and biomedical spreadsheets from the Genomic Data Commons.
Acquisition
All images were contributed by Barretos Cancer Hospital in Brazil and come from routine care, not from a research protocol. The scanners are Philips Achieva, GE Signa HDxt and Signa Excite, and Siemens Symphony systems. Series descriptions, partly in Portuguese, show T2-weighted and T1-weighted pelvic series in several planes, diffusion weighted imaging with ADC maps, and dynamic contrast-enhanced series in some studies. The baseline studies were acquired before surgery. DICOM dates are shifted by a random offset that is fixed per site, so intervals between studies stay correct.
Annotations
No image annotations or segmentations are distributed.
Known limitations
- Single-site cohort of 54 patients, with protocols that vary by scanner.
- Patient age is missing from the DICOM headers of 22 patients, and one patient's sex field reads male.
- Field strengths and acquisition parameters are not summarized by the provider.
- TCIA and TCGA use different date schemes that are not reconciled.
Cohort
Aggregate numbers from the sources below. Bars are relative to the 54 subjects.
Sex
- Female 53 98%
- Male 1 2%
Age
mean 50.2± 13.6 · range 26 to 79Modality
subjects
- MRI 54 100%
Scanner vendor
subjects
- Philips 25 46%
- GE HealthCare 22 41%
- Siemens Healthineers 8 15%
License and access
Our reading of the license, not legal advice. Before you use the data, read the original license and confirm that your use is allowed. We take no responsibility for how you use a dataset. Full disclaimer
Download without an account
Images download with the TCIA Data Retriever or from the NCI Imaging Data Commons. Clinical, genomic and histopathology data for the same patient IDs are in the NCI Genomic Data Commons project TCGA-CESC.
Creative Commons Attribution 3.0 Unported
Older version of CC BY. Use, share and adapt the data for any purpose, including commercial use, as long as you credit the creators.
What you can do
- Yes
- Yes
- Yes
- Yes
What you can share
- Yes
- Yes
- Yes
What you must do
- Yes
- Share alike No
- No
- No
- Manuscript review No
- Release code No
- Return results No
- Delete after use No
Limits
- No
- Location limits No
Citation
Lucchesi FR, Aredes ND. (2016). The Cancer Genome Atlas Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma Collection (TCGA-CESC) (Version 3) [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2016.SQ4M8YP4
All numbers
Every number on this page, as stored in stats.csv, with its source.
| Measure | Breakdown | Value | Source |
|---|---|---|---|
| Subjects | total | 54 | tcia-tcga-cesc Data Access table |
| Studies | total | 57 | tcia-tcga-cesc Data Access table |
| Scans | total DICOM series | 488 | tcia-tcga-cesc Data Access table |
| Images | total DICOM images (slices) | 19,135 | tcia-tcga-cesc Data Access table |
| Subjects | modality=MR | 54 | tcia-tcga-cesc-digest Metadata sheet, columns Patient ID and Modality |
| Subjects | sex=female DICOM Patient Sex | 53 | tcia-tcga-cesc-digest Metadata sheet, column Patient Sex |
| Subjects | sex=male DICOM Patient Sex as recorded in the header, which conflicts with the cervical cancer diagnosis | 1 | tcia-tcga-cesc-digest Metadata sheet, column Patient Sex |
| Subjects | vendor=philips Philips Medical Systems | 25 | tcia-tcga-cesc-digest Metadata sheet, column Manufacturer |
| Subjects | vendor=ge GE MEDICAL SYSTEMS | 22 | tcia-tcga-cesc-digest Metadata sheet, column Manufacturer |
| Subjects | vendor=siemens SIEMENS | 8 | tcia-tcga-cesc-digest Metadata sheet, column Manufacturer |
| Subjects | age=20-29 DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 2 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Subjects | age=30-39 DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 6 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Subjects | age=40-49 DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 6 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Subjects | age=50-59 DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 10 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Subjects | age=60-69 DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 5 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Subjects | age=70-79 DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 3 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Mean age | total DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 50.2 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Age SD | total sample standard deviation over the 32 patients with an age | 13.6 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Median age | total DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 51 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Minimum age | total DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 26 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
| Maximum age | total DICOM Patient Age at the imaging study; 32 of 54 patients have an age in the header | 79 | tcia-tcga-cesc-digest Metadata sheet, column Patient Age |
Sources
The keys used in the table above.
- tcia-tcga-cesc TCIA TCGA-CESC collection page (version 3, updated 2020/05/29) website
- tcia-tcga-cesc-digest TCIA TCGA-CESC series metadata digest (CC BY 3.0, open download) computed