{"id":46237,"date":"2023-11-20T06:01:37","date_gmt":"2023-11-20T12:01:37","guid":{"rendered":"https:\/\/stage.cancerimagingarchive.net\/analysis-result\/aren0533-tumor-annotations\/"},"modified":"2025-03-20T13:39:46","modified_gmt":"2025-03-20T18:39:46","slug":"aren0533-tumor-annotations","status":"publish","type":"tcia_analysis_result","link":"https:\/\/stage.cancerimagingarchive.net\/analysis-result\/aren0533-tumor-annotations\/","title":{"rendered":"AREN0533-TUMOR-ANNOTATIONS"},"featured_media":0,"template":"","class_list":["post-46237","tcia_analysis_result","type-tcia_analysis_result","status-publish"],"cancer_types":["Wilms Tumor"],"citations":[46227,9225],"result_doi":"10.7937\/WFCC-DA41","result_download_info":"","result_downloads":[46229,46231],"version_change_log_archived":"Version 1 (Current): Updated 2023\/01\/31\r\nData TypeDownload all or Query\/FilterLicenseAREN0533 Annotations -- Segmentations, Seed Points, and Negative Findings Assessments (DICOM, 0.1 GB)\r\n Download\u00a0\r\n\r\n Search\u00a0\r\n(Download requires\u00a0the\u00a0NBIA Data Retriever)CC BY 4.0AREN0533 Annotation Metadata (CSV)\r\n Download\u00a0\r\nCC BY 4.0Original AREN0533 Images\u00a0used to create Segmentations and Seed Points (DICOM,\u00a0 50.3 GB)\r\n Download\u00a0\r\n(Download requires\u00a0the\u00a0NBIA Data Retriever)NCTN\/NCORP Data Archive License (Without Collaborative Agreement)Original AREN0533 Images\u00a0used to create Negative Assessment reports (DICOM, 3.7\u00a0 GB)\r\n Download\u00a0\r\n(Download requires\u00a0the\u00a0NBIA Data Retriever)NCTN\/NCORP Data Archive License (Without Collaborative Agreement)","versions":false,"additional_resources":"<ul>\r\n \t<li>NCTN\/NCORP Data Archive provides the <a href=\"https:\/\/nctn-data-archive.nci.nih.gov\/node\/737\">Clinical Data files<\/a> related to these subjects, and is also where you go to request access to the entire dataset<\/li>\r\n \t<li><a href=\"https:\/\/github.com\/kirbyju\/TCIA_Notebooks\/blob\/main\/TCIA_NCTN_Annotations.ipynb\">Jupyter notebook<\/a> demonstrating how to use the\u00a0<a href=\"https:\/\/wiki.cancerimagingarchive.net\/display\/NBIA\/NBIA+Data+Retriever+Command-Line+Interface+Guide\">NBIA Data Retriever Command-Line Interface<\/a> application and <a href=\"https:\/\/wiki.cancerimagingarchive.net\/display\/Public\/NBIA+Search+with+Authentication+REST+API+Guide\">REST API (with authentication)<\/a> to access these data<\/li>\r\n \t<li>Instructions for <a href=\"https:\/\/github.com\/QIICR\/TCIABrowser\/raw\/master\/User%20Guide%20for%203D%20Slicer%20TCIA%20Browser.pptx\">Visualizing these data in 3D Slicer<\/a><\/li>\r\n<\/ul>","cancer_locations":["Kidney"],"publications_related":"","result_page_accessibility":"Public","detailed_description":"","publications_using":"TCIA maintains\u00a0<a href=\"https:\/\/www.cancerimagingarchive.net\/publications\/\">a list of publications<\/a> which leverage TCIA data. If you have a manuscript you'd like to add please\u00a0<a href=\"http:\/\/www.cancerimagingarchive.net\/support\/\">contact TCIA's Helpdesk<\/a>.","result_title":"Annotations for Combination Chemotherapy With or Without Radiation Therapy in Treating Young Patients With Newly Diagnosed Stage III or Stage IV Wilms Tumor","species":["Human"],"version_number":"1","date_updated":"2023-01-31","related_collections":[41869],"result_short_title":"AREN0533-Tumor-Annotations","subjects":"294","related_analysis_results":false,"result_browse_title":"Annotations for Combination Chemotherapy With or Without Radiation Therapy in Treating Young Patients With Newly Diagnosed Stage III or Stage IV Wilms Tumor (AREN0533-Tumor-Annotations)","supporting_data":false,"version_change_log":"","collections":"","result_summary":"This dataset contains image annotations derived from the NCI Clinical Trial \"<a href=\"https:\/\/www.cancerimagingarchive.net\/collection\/aren0533\/\">Combination Chemotherapy With or Without Radiation Therapy in Treating Young Patients With Newly Diagnosed Stage III or Stage IV Wilms Tumor (AREN0533)<\/a>\u201d. \u00a0This 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.\r\n<h3>Annotation Protocol<\/h3>\r\nFor each patient, all scans were reviewed to identify and annotate the clinically relevant time points and sequences\/series. Scans were initially annotated by an international team of radiologists holding MBBS degrees or higher, which were then reviewed by US-based board-certified radiologists to ensure accuracy. In a typical patient the following time points were annotated:\r\n<ol>\r\n \t<li>Pre-treatment CT chest and abdomen<\/li>\r\n \t<li>CT chest and\/or CT abdomen at 6 weeks<\/li>\r\n \t<li>Possible CT abdomen at 12 weeks.<\/li>\r\n<\/ol>\r\nIn a typical patient the following annotation rules were followed:\r\n<ol>\r\n \t<li>The primary renal tumor(s) were annotated on post-contrast axial series. Normal renal parenchyma were excluded.<\/li>\r\n \t<li>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.<\/li>\r\n \t<li>RECIST 1.1 principles were generally followed for lesion annotation, however if &lt;5 lesions measuring &gt;1 cm were present, then smaller lesions were annotated, again up to 2 lesions per organ or 5 lesions per patient scan.<\/li>\r\n \t<li>Bone lesions were included if other lesions were not present.<\/li>\r\n \t<li>To ensure a high standard of accuracy and data quality, each annotation was reviewed by a secondary reader.<\/li>\r\n<\/ol>\r\nAt each timepoint:\r\n<ol>\r\n \t<li>Volumetric segmentations, seed points and negative finding assessments (DICOM RTSTRUCT) were created.<\/li>\r\n \t<li>SNOMED-CT \u201cAnatomic Region Sequence\u201d and \u201cSegmented Property Category Code Sequence\u201d and codes were inserted for all segmented structures.<\/li>\r\n \t<li>Imaging time point codes were inserted to help identify each annotation in the context of the clinical trial assessment protocol.\r\n<ol>\r\n \t<li>\u201cClinical Trial Time Point ID\u201d was used to encode time point type using one of the following strings as applicable: \u201cpre-dose\u201d or \u201cpost-chemotherapy\u201d.<\/li>\r\n \t<li>The Content Item in \u201cAcquisition Context Sequence\u201d was added containing \"Time Point Type\" using Concept Code Sequence (0040,A168) selected from:\r\n<ol>\r\n \t<li>(255235001, SCT, \u201cPre-dose\u201d)<\/li>\r\n \t<li>(262502001, SCT, \"Post-chemotherapy\")<\/li>\r\n<\/ol>\r\n<\/li>\r\n<\/ol>\r\n<\/li>\r\n<\/ol>\r\n<h3>Important supplementary information and sample code<\/h3>\r\n<ol>\r\n \t<li>A spreadsheet containing key details about the annotations is available in the <strong>Data Access<\/strong>\u00a0section below.<\/li>\r\n \t<li>A\u00a0Jupyter notebook demonstrating how to use the\u00a0<a href=\"https:\/\/wiki.cancerimagingarchive.net\/display\/NBIA\/NBIA+Data+Retriever+Command-Line+Interface+Guide\">NBIA Data Retriever Command-Line Interface<\/a> application and the <a href=\"https:\/\/wiki.cancerimagingarchive.net\/display\/Public\/NBIA+Search+with+Authentication+REST+API+Guide\">REST API (with authentication)<\/a>\u00a0to access these data can be found in the\u00a0<strong>Additional Resources<\/strong>\u00a0section below.<\/li>\r\n<\/ol>","collection_downloads":[46233,46235],"result_featured_image":false,"result_acknowledgements":"","hide_from_browse_table":"0","program":["NCTN"],"_links":{"self":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/analysis-results\/46237","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/analysis-results"}],"about":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/wp\/v2\/types\/tcia_analysis_result"}],"version-history":[{"count":1,"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/analysis-results\/46237\/revisions"}],"predecessor-version":[{"id":47297,"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/analysis-results\/46237\/revisions\/47297"}],"wp:attachment":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/wp\/v2\/media?parent=46237"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}