Summary
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Acknowledgements
We would like to acknowledge the individuals and institutions that have provided data for this collection:
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Hospital/Institution Name city, state, country - Special thanks to First Last Names, degree PhD, MD, etc from the Department of xxxxxx, Additional Names from same location.
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This dataset contains image annotations derived from the NCI Clinical Trial "ACRIN-HNSCC-FDG-PET/CT (ACRIN 6685)”. This dataset was generated as part of an NCI project to augment TCIA datasets with annotations that will improve their value for cancer researchers and AI developers. Annotation ProtocolFor each patient, all scans were reviewed to identify and annotate the clinically relevant time points and sequences/series. In a typical patient all available time points were annotated. The following annotation rules were followed: - PERCIST criteria was followed for PET imaging. Specifically, the lesions estimated to have the most elevated SUVmax were annotated.
- RECIST 1.1 was otherwise generally followed for MR and CT imaging. A maximum of 5 lesions were annotated per patient scan (timepoint); no more than 2 per organ. The same 5 lesions were annotated at each time point. Lymph nodes were annotated if >1 cm in short axis. Other lesions were annotated if >1 cm. If the primary lesion is < 1 cm, it was still annotated.
- Three-dimensional segmentations of lesions were created in the axial plane. If no axial plane was available, lesions were annotated in the coronal plane.
- MRIs were annotated using the T1-weighted axial post contrast sequence, fat saturated if available.
- CTs were annotated using the axial post contrast series. If not available, the non contrast series were annotated.
- PET/CTs were annotated on the CT and attenuation corrected PET images.
- If the post contrast CT was performed the same day as the PET/CT, the non contrast CT portion of the PET/CT was not annotated.
- Lesions were labeled separately.
- The volume of each annotated lesion was calculated and reported in cubic centimeters [cc] in the Annotation Metadata CSV.
- Seed points were automatically generated, but reviewed by a radiologist.
- A “negative” annotation was created for any exam without findings.
At each time point: - A seed point (kernel) was created for each segmented structure. The seed points for each segmentation are provided in a separate DICOM RTSTRUCT file.
- SNOMED-CT “Anatomic Region Sequence” and “Segmented Property Category Code Sequence” and codes were inserted for all segmented structures.
- “Tracking ID” and “Tracking UID” tags were inserted for each segmented structure to enable longitudinal lesion tracking.
- Imaging time point codes were inserted to help identify each annotation in the context of the clinical trial assessment protocol.
- “Clinical Trial Time Point ID” was used to encode time point type using one of the following strings as applicable: “pre-dose” or “post-chemotherapy”.
- Content Item in “Acquisition Context Sequence” was added containing "Time Point Type" using Concept Code Sequence (0040,A168) selected from:
- (255235001, SCT, “Pre-dose”) (in this trial, both the CT/MRI and PET/CT, while being different timepoints, are pre-treatment)
- A spreadsheet containing key details about the annotations is available in the Data Access section below.
- A Jupyter notebook demonstrating how to use the NBIA Data Retriever Command-Line Interface application and the REST API to access these data can be found in the Additional Resources section below.
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title | Data Access |
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| Data AccessData Type | Download all or Query/Filter | License |
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Images, Segmentations, and Radiation Therapy Structures/Doses/Plans (DICOM, XX.X GB) << latter two items only if DICOM SEG/RTSTRUCT/RTDOSE/PLAN exist >> | ACRIN 6685 Annotations - Segmentations, Seed Points, and Negative Findings Assessments (DICOM, 37 MB)
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url | https://wiki.cancerimagingarchive.net/download/attachments/163874551/ACRIN6685_Tumor-Annotations-manifest_11-07-2023.tcia?api=v2 |
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| tcia-button-generatorClinical data (CSV
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label | Search |
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url | https://nbia.cancerimagingarchive.net/nbia-search/?ImageModalityCriteria=RTSTRUCT&CollectionCriteria=ACRIN-HNSCC-FDG-PET-CT&DateRange=11/01/2023-11/30/2023&ThirdPartyCriteria=YES |
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ACRIN 6685 Annotation Metadata (CSV, 806 KB) | |
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| Click the Versions tab for more info about data releases. url | https://wiki.cancerimagingarchive.net/download/attachments/163874551/Metadata_Report_ACRIN-HNSCC_2023_11_07.csv?api=v2 |
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Additional Resources for this DatasetCollections Used in this Third Party Analyses of this DatasetAnalysisTCIA encourages the community to publish your analyses of our datasets. Below is a list of such third party analyses published using this Collection:the Collections used in these analyses: Source Data Type | Download | License |
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Original ACRIN 6685 Images used to create Segmentations and Seed Points (DICOM, 38.9 GB) | Tcia button generator |
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url | https://wiki.cancerimagingarchive.net/download/attachments/163874551/ACRIN6685_SourceImages-SEGSandSeedpoints-manifest_11-07-2023.tcia?api=v2 |
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| Original ACRIN 6685 Images used to create Negative Assessment reports (DICOM, 2.5 GB) | Tcia button generator |
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url | https://wiki.cancerimagingarchive.net/download/attachments/163874551/ACRIN6685_SourceImages-NegativeAssessments-manifest_11-07-2023.tcia?api=v2 |
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(Download requires NBIA Data Retriever) | | ACRIN 6685 Clinical Data, file set 1 (XLS, zip, 539 kB) | Tcia button generator |
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url | https://wiki.cancerimagingarchive.net/download/attachments/52763679/ACRIN%206685%20HNSCC%20FDG%20PET_CT%20TCIA%20Anonymized.zip?api=v2 |
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| | ACRIN 6685 Clinical Data, file set 2 (XLS, zip, 479 kB) | Tcia button generator |
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url | https://wiki.cancerimagingarchive.net/download/attachments/52763679/ACRIN%206685%20HB%20HNSCC%20FDG%20PET_CT%20TCIA%20Reviewed.zip?api=v2 |
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title | Detailed Description |
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| Detailed DescriptionImage Statistics | Radiology Image Statistics | Pathology Image Statistics |
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Modalities | RTSTRUCT | Modalities | Number of Patients | 258 | Number of Studies | 481 | Number of Series | 2085 | Number of Images | 2085 | Images Size (GBMB) |
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title | Citations & Data Usage Policy |
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| Citations & Data Usage Policy Tcia limited license policy |
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| DOI goes here. Create using Datacite with information from Collection Approval form |
Info |
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title | Publication Citation |
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| We ask on the proposal form if they have ONE traditional publication they'd like users to cite. |
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| Required acknowledgements only (ex:The CPTAC program requests that publications using data from this program...). If they just want to thank someone, that goes in the Acknowledgement section underneath the Summary.Rozenfeld, M., & Jordan, P. (2023). Annotations for ACRIN-HNSCC-FDG-PET/CT Collection (ACRIN 6685-Tumor-Annotations) (Version 1) [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/JVGC-AQ36 |
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| Clark, K., Vendt, B., Smith, K., Freymann, J., Kirby, J., Koppel, P., Moore, S., Phillips, S., Maffitt, D., Pringle, M., Tarbox, L., & Prior, F. (2013). The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository. In Journal of Digital Imaging (Vol. 26, Issue 6, pp. 1045–1057). Springer Science and Business Media LLC.https://doi.org/10.1007/s10278-013-9622-7 |
Other Publications Using This DataTCIA maintains a list of publications which leverage TCIA data. If If you have a manuscript you'd like to add please contact the TCIA's Helpdesk. |
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| Version X 1 (Current): Updated yyyy2023/mm11/dd13Data Type | Download all or Query/Filter | License |
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ACRIN 6685 Annotations - Segmentations, Seed Points, and Negative Findings Assessments (DICOM, 37 MB)
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url | https://wiki.cancerimagingarchive.net/download/attachments/163874551/ACRIN6685_Tumor-Annotations-manifest_11-07-2023.tcia?api=v2 |
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| Images, Segmentations, and Radiation Therapy Structures/Doses/Plans (DICOM, XX.X GB) << latter two items only if DICOM SEG/RTSTRUCT/RTDOSE/PLAN exist >> |
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label | Search |
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url | https://nbia.cancerimagingarchive.net/nbia-search/?ImageModalityCriteria=RTSTRUCT&CollectionCriteria=ACRIN-HNSCC-FDG-PET-CT&DateRange=11/01/2023-11/30/2023&ThirdPartyCriteria=YES |
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(Download requires the NBIA Data Retriever) | | ACRIN 6685 Annotation Metadata (CSV, 806 KB) | restrictedlicense Nctn_with_collab license only |
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url | https://wiki.cancerimagingarchive.net/download/attachments/163874551/Metadata_Report_ACRIN-HNSCC_2023_11_07.csv?api=v2 |
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| | Original ACRIN 6685 Images used to create Segmentations and Seed Points (DICOM, 38.9 Tissue Slide Images (SVS, XX.X GB) | Tcia button generator |
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url | https://wiki.cancerimagingarchive.net/download/attachments/163874551/ACRIN6685_SourceImages-SEGSandSeedpoints-manifest_11-07-2023.tcia?api=v2 |
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| Clinical data (CSVOriginal ACRIN 6685 Images used to create Negative Assessment reports (DICOM, 2.5 GB) | tcia-cc-by-4 |
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url | https://wiki.cancerimagingarchive.net/download/attachments/163874551/ACRIN6685_SourceImages-NegativeAssessments-manifest_11-07-2023.tcia?api=v2 |
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