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Researchers will have the unique opportunity to visualize how head-and-neck squamous cell carcinoma (HNSCC) patients’ 3D CT image data changes with radiotherapy between pre-treatment, mid-treatment, and post-treatment. They will also have the advantage to receive additional information such as a) photon energy, b) number of arcs for volumetric modulated arc radiotherapy (VMAT) therapy, c) tumor volume and location, d) CT-to-density table, e) treatment related toxicities for parotid glands and oral cavity, f) patient age and weight, patient chemotherapy medication, g) prior surgery, h) performance status, i) histology, j) disease stage, k) number of targets, l) organs at risk, and m) other structures delineated on the CT image.

This collection comprises 25 patients with Manufacturer CT at Veteran's Hospital before treatment and 2 follow up T1-weighted and FLAIR MRI along with accompanying digitized histopathology (H&E stained) images of corresponding biopsy specimens. Each slide was digitized at 10x magnification using an Aperio slide scanner resulting in a set of .svs images. Annotations of cancer presence on the pseudo-whole mount sections were made by an expert pathologist. Segmentation was performed with by Software (github, below) and compared to expert radiologist segmentation. co-registered the corresponding radiologic and histopathologic tissue sections to map disease extent onto the corresponding MRI scans. Co-clinical data that led to this therapy in humans is available within TCIA (here) as ThisOther Collection. For more information about the original aims of this trial please see: http://meeting.conference.org/abstract/35849.

data collection contains three dimensional high-resolution (3D) fan-beam CT scans collected during pre-treatment, mid-treatment, and post-treatment using a Siemens 16-slice CT scanner with standard clinical protocol for 31 head-and-neck squamous cell carcinoma (HNSCC) patients. Patients underwent radiotherapy treatment to a total dose of 58-70 Gy, using daily 2-2.20 Gy, fractions for 30-35 fractions. The pre-treatment planning CT scans were performed with a median of 13 days (range: 2-27) before treatment, the mid-treatment CT was performed at fraction 17 (range: 8-26), and the post-treatment CT around fraction 30 (range: 26th fraction - 21 weeks post treatment). In addition to the imaging data, the data sets contain contours of anatomical structures for radiotherapy. The contours were generated by the attending radiation oncologists for treatment planning purposes, and subsequently treatment plans were generated with Eclipse® (Varian Medical Systems, Inc., Palo Alto, CA) treatment planning system. In addition to CT image data, included are: a) photon energy, b) number of arcs for volumetric modulated arc radiotherapy (VMAT) therapy, c) tumor volume and location, d) CT-to-density table, e) treatment related toxicities for parotid glands and oral cavity, f) patient age and weight, patient chemotherapy medication, g) prior surgery, h) performance status, i) histology, j) disease stage, k) number of targets, l) organs at risk, and m) other structures delineated on the CT image.

All patients were recruited according to the following criteria. Inclusion: i) patients had histologically confirmed head-and-neck tumors, ii) were treated with definitive radiation therapy or concurrent chemoradiation therapy, iii) patients treated with post-operative radiation therapy, for whom the gross tumor volume (GTV) or the resection cavity were visible on CT, such that it could be delineated as a target for radiotherapy, iv) patients were informed of the investigational nature of this study and were able to understand and to sign a written informed consent document.

Exclusion: i) pregnant or nursing women were not eligible to participate, ii) women of reproductive potential must have been offered a pre-treatment pregnancy test and informed of the need to practice an effective contraceptive method, iii) patients younger than 18 years, and iv) patients whose size and weight would not allow CT scanning.

Pathology and Matlab Data

Reconstructed, annotated whole slide pathology as well as fused Rad-Path matlab objects are also available at https://pathology.cancerimagingarchive.net/pathdata/.

Segmentation Software

Myscriptsandthings was written to convert the XML into a visualization in python.  It is available for download as a community tool here as a container and at https://github.com/Radiomics/thestuffwecommit in developer versions.

Localtab
active true title Data Access
Data Access (Radiology) Choosing the Download option will provide you with a file to launch the TCIA Download Manager to download the entire collection. If you want to browse or filter the data to select only specific scans/studies please use the Search option. Tcia head license access Data Type Download all or Query/Filter Images License Images and Radiation Therapy Structures (DICOM, GB 14GB) Image RemovedImage Removed DICOM Metadata Digest (CSV)	Image Removed
Annotated Whole Slide Pathology Images	Image Removed
Fused Rad-Path Matlab Files	Image Removed Image Removed
Clinical Data (xls, MB)	Image Removed
Detailed genomic and expression array data (External Link)	Image Removed
Radiologist Annotations/Segmentations (XML)	Image Removed
Nodule Size List (web)	Image Removed