{"id":41365,"date":"2023-11-20T00:57:35","date_gmt":"2023-11-20T06:57:35","guid":{"rendered":"https:\/\/stage.cancerimagingarchive.net\/collection\/lung-pet-ct-dx\/"},"modified":"2024-10-30T09:16:31","modified_gmt":"2024-10-30T14:16:31","slug":"lung-pet-ct-dx","status":"publish","type":"tcia_collection","link":"https:\/\/stage.cancerimagingarchive.net\/collection\/lung-pet-ct-dx\/","title":{"rendered":"LUNG-PET-CT-DX"},"featured_media":6619,"template":"","class_list":["post-41365","tcia_collection","type-tcia_collection","status-publish","has-post-thumbnail"],"cancer_types":["Lung Cancer"],"citations":[41333,9225],"collection_doi":"10.7937\/TCIA.2020.NNC2-0461","collection_download_info":"","collection_downloads":[41335,41337,41339],"versions":[41357,41359,41361,41363],"additional_resources":"The NCI Cancer Research Data Commons (CRDC) provides access to additional data and a cloud-based data science infrastructure that connects data sets with analytics tools to allow users to share, integrate, analyze, and visualize cancer research data.\r\n<ul>\r\n \t<li><a href=\"https:\/\/portal.imaging.datacommons.cancer.gov\/explore\/filters\/?collection_id=lung_pet_ct_dx\">Imaging Data Commons (IDC)<\/a> (Imaging Data)<\/li>\r\n \t<li>IDC Zenodo community dataset <a href=\"https:\/\/zenodo.org\/doi\/10.5281\/zenodo.8345959\">Image segmentations produced by BAMF under the AIMI Annotations initiative<\/a><\/li>\r\n<\/ul>\r\nIn addition, the following external resources have been made available by the data submitters.\u00a0 These are not hosted or supported by TCIA, but may be useful to researchers utilizing this collection.\r\n<ul>\r\n \t<li>Annotations were captured using <a href=\"https:\/\/pypi.org\/project\/labelImg\/\">Labellmg<\/a><\/li>\r\n \t<li>The image annotations are saved as XML files in PASCAL VOC format, which can be parsed using the PASCAL Development Toolkit:\u00a0\u00a0<a href=\"https:\/\/pypi.org\/project\/pascal-voc-tools\/\">https:\/\/pypi.org\/project\/pascal-voc-tools\/<\/a><\/li>\r\n \t<li>Python code to visualize the annotation boxes on top of the DICOM images can be <a href=\"\/wp-content\/uploads\/VisualizationTools.zip\" download=\"VisualizationTools.zip\">downloaded here<\/a>.<\/li>\r\n<\/ul>","cancer_locations":["Lung"],"collection_page_accessibility":"Public","publications_related":".","version_change_log_archived":"<h3>Version 5 (Current): Updated 2020\/12\/22<\/h3><table><colgroup><col \/><col \/><\/colgroup><thead><tr><th colspan=\"1\"><p>Data Type<\/p><\/th><th colspan=\"1\"><p>Download all or Query\/Filter<\/p><\/th><\/tr><\/thead><tbody><tr><td colspan=\"1\">Images (DICOM, 127.2GB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/Lung-PET-CT-Dx-NBIA-Manifest-122220.tcia\" download=\"Lung-PET-CT-Dx-NBIA-Manifest-122220.tcia\"><button><i><\/i> Download<\/button><\/a>\u00a0 <a href=\"https:\/\/nbia.cancerimagingarchive.net\/nbia-search\/?MinNumberOfStudiesCriteria=1&amp;CollectionCriteria=Lung-PET-CT-Dx\"><button><i><\/i> Search<\/button><\/a>\u00a0 <a href=\"https:\/\/nbia.cancerimagingarchive.net\/nbia-search\/?MinNumberOfStudiesCriteria=1&amp;CollectionCriteria=Lung-PET-CT-Dx\">\u00a0<\/a><\/p><p>(Download requires\u00a0the\u00a0<a href=\"https:\/\/wiki.cancerimagingarchive.net\/display\/NBIA\/Downloading+TCIA+Images\">NBIA Data Retriever<\/a>)<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\">Annotation Files (XML, 17.26\u00a0MB)<\/td><td colspan=\"1\"><div><div><p><a href=\"\/wp-content\/uploads\/Lung-PET-CT-Dx-Annotations-XML-Files-rev12222020.zip\" download=\"Lung-PET-CT-Dx-Annotations-XML-Files-rev12222020.zip\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/div><\/td><\/tr><tr><td colspan=\"1\">Clinical Data (XLSX, 36 KB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/statistics-clinical-20201221.xlsx\" download=\"statistics-clinical-20201221.xlsx\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table><p>Clinical data has been added for all 355 subjects.\u00a0<\/p><p>Eight subjects were removed from the dataset because the submitting site determined that they required further medical examinations to make an accurate diagnosis.<\/p><h3>Version 4: Updated 2020\/10\/16<\/h3><table><colgroup><col \/><col \/><\/colgroup><thead><tr><th colspan=\"1\"><p>Data Type<\/p><\/th><th colspan=\"1\"><p>Download all or Query\/Filter<\/p><\/th><\/tr><\/thead><tbody><tr><td colspan=\"1\">Images (DICOM,132\u00a0GB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/Lung-PET-CT-Dx-NBIA-manifest-07242020.tcia\" download=\"Lung-PET-CT-Dx-NBIA-manifest-07242020.tcia\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><p>(Download requires\u00a0the\u00a0<a href=\"https:\/\/wiki.cancerimagingarchive.net\/display\/NBIA\/Downloading+TCIA+Images\">NBIA Data Retriever<\/a>)<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\">Annotation Files (XML, 17.26\u00a0MB)<\/td><td colspan=\"1\"><div><div><p><a href=\"\/wp-content\/uploads\/Lung-PET-CT-Dx-Annotations-XML-Files-rev10152020.zip\" download=\"Lung-PET-CT-Dx-Annotations-XML-Files-rev10152020.zip\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/div><\/td><\/tr><\/tbody><\/table><p>Annotation files were corrected and updated at the request of the submitting site.<\/p><h3>Version 3: Updated 2020\/07\/24<\/h3><table><colgroup><col \/><col \/><\/colgroup><thead><tr><th colspan=\"1\"><p>Data Type<\/p><\/th><th colspan=\"1\"><p>Download all or Query\/Filter<\/p><\/th><\/tr><\/thead><tbody><tr><td colspan=\"1\">Images (DICOM,132\u00a0GB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/Lung-PET-CT-Dx-NBIA-manifest-07242020.tcia\" download=\"Lung-PET-CT-Dx-NBIA-manifest-07242020.tcia\"><button><i><\/i> Download<\/button><\/a>\u00a0 <a href=\"https:\/\/nbia.cancerimagingarchive.net\/nbia-search\/?MinNumberOfStudiesCriteria=1&amp;CollectionCriteria=Lung-PET-CT-Dx\"><button><i><\/i> Search<\/button><\/a>\u00a0<\/p><p>(Download requires\u00a0the\u00a0<a href=\"https:\/\/wiki.cancerimagingarchive.net\/display\/NBIA\/Downloading+TCIA+Images\">NBIA Data Retriever<\/a>)<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\">Annotation Files (XML,\u00a014.62 MB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/Lung-PET-CT-Dx-Annotations-XML-Files-rev07142020.zip\" download=\"Lung-PET-CT-Dx-Annotations-XML-Files-rev07142020.zip\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table><p>PET scans have been added for 140 subjects.<\/p><h3>Version 2: Updated 2020\/07\/14<\/h3><table><colgroup><col \/><col \/><\/colgroup><tbody><tr><th>Data Type<\/th><th>Download all or Query\/Filter<\/th><\/tr><tr><td>Images (DICOM,\u00a0128\u00a0GB)<\/td><td><div><p><a href=\"\/wp-content\/uploads\/Lung-PET-CT-Dx-NBIA-manifest-07152020.tcia\" download=\"Lung-PET-CT-Dx-NBIA-manifest-07152020.tcia\"><button><i><\/i> Download<\/button><\/a>\u00a0 <a href=\"https:\/\/nbia.cancerimagingarchive.net\/nbia-search\/?MinNumberOfStudiesCriteria=1&amp;CollectionCriteria=Lung-PET-CT-Dx\"><button><i><\/i> Search<\/button><\/a>\u00a0 <a href=\"https:\/\/nbia.cancerimagingarchive.net\/nbia-search\/?MinNumberOfStudiesCriteria=1&amp;CollectionCriteria=Lung-PET-CT-Dx\">\u00a0<\/a><\/p><p>(Requires\u00a0<a href=\"https:\/\/wiki.cancerimagingarchive.net\/display\/NBIA\/Downloading+TCIA+Images\">NBIA Data Retriever<\/a>)<\/p><\/div><\/td><\/tr><tr><td>Annotation Files (XML,\u00a014.62 MB)<\/td><td><div><p><a href=\"\/wp-content\/uploads\/Lung-PET-CT-Dx-Annotations-XML-Files-rev07142020.zip\" download=\"Lung-PET-CT-Dx-Annotations-XML-Files-rev07142020.zip\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table><p>After publication of this dataset, the submitter notified us that the data for Subject Lung_Dx-A0266 really belonged to Subject Lung_Dx-A0251 and that Subject Lung_Dx-A0266 should not exist in the collection.\u00a0 Version 2 corrects this issue.<\/p><h3>Version 1: Updated 2020\/06\/17<\/h3><table><colgroup><col \/><col \/><\/colgroup><tbody><tr><th>Data Type<\/th><th>Download all or Query\/Filter<\/th><\/tr><tr><td>Images (DICOM,\u00a0128\u00a0GB)<\/td><td><div><p>Unavailable, see version 2 note.<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\">Annotation Files (XML,\u00a014.62 MB)<\/td><td colspan=\"1\"><div><p>Unavailable, see version 2 note.<\/p><\/div><\/td><\/tr><\/tbody><\/table>","collection_status":"Complete","publications_using":"TCIA maintains\u00a0<a href=\"https:\/\/commons.datacite.org\/doi.org\/10.7937\/TCIA.2020.NNC2-0461\">a list of publications<\/a>\u00a0that leveraged this dataset. If you have a manuscript you\u2019d like to add please\u00a0<a href=\"http:\/\/www.cancerimagingarchive.net\/support\/\">contact TCIA\u2019s Helpdesk<\/a>.","related_analysis_results":[46301],"species":["Human"],"version_number":"5","collection_title":"A Large-Scale CT and PET\/CT Dataset for Lung Cancer Diagnosis","date_updated":"2020-12-22","related_collection":false,"subjects":"355","analysis_results":"","collection_short_title":"Lung-PET-CT-Dx","data_types":["CT","PT"],"version_change_log":"<p class=\"auto-cursor-target\">Clinical data has been added for all 355 subjects.<\/p>\r\n<p class=\"auto-cursor-target\">Eight subjects were removed from the dataset because the submitting site determined that they required further medical examinations to make an accurate diagnosis.<\/p>","collection_browse_title":"Lung-PET-CT-Dx","detailed_description":"","supporting_data":["Image Analyses","Software\/Source Code"],"collection_featured_image":{"ID":"6619","post_author":"29","post_date":"2023-09-13 08:47:57","post_date_gmt":"2023-09-13 13:47:57","post_content":"","post_title":"graphic","post_excerpt":"","post_status":"inherit","comment_status":"closed","ping_status":"closed","post_password":"","post_name":"graphic","to_ping":"","pinged":"","post_modified":"2024-01-04 16:22:19","post_modified_gmt":"2024-01-04 22:22:19","post_content_filtered":"","post_parent":"41365","guid":"https:\/\/stage.cancerimagingarchive.net\/wp-content\/uploads\/graphic.png","menu_order":"0","post_type":"attachment","post_mime_type":"image\/png","comment_count":"0","pod_item_id":"6619"},"collection_summary":"<p>This dataset consists of CT and PET-CT DICOM images of lung cancer subjects with XML Annotation files that indicate tumor location with bounding boxes.\u00a0The images were retrospectively acquired from patients with suspicion of lung cancer, and who\u00a0underwent standard-of-care lung biopsy and PET\/CT. Subjects were grouped according to a tissue histopathological diagnosis. Patients with Names\/IDs containing the letter 'A' were diagnosed with Adenocarcinoma, 'B' with Small Cell Carcinoma, 'E' with Large Cell Carcinoma, and 'G' with Squamous Cell Carcinoma.<\/p><p>The images were analyzed on the mediastinum (window width, 350 HU; level, 40 HU) and lung (window width, 1,400 HU; level, \u2013700 HU) settings. The reconstructions were made in 2mm-slice-thick and lung settings. The CT slice interval varies from 0.625 mm to 5 mm. Scanning mode includes plain, contrast and 3D reconstruction.\u00a0<\/p><p>Before the examination, the patient underwent fasting for at least 6 hours, and the blood glucose of each patient was less than 11 mmol\/L. Whole-body emission scans were acquired 60 minutes after the intravenous injection of 18F-FDG (4.44MBq\/kg, 0.12mCi\/kg), with patients in the supine position in the PET scanner. FDG doses and uptake times were 168.72-468.79MBq (295.8\u00b164.8MBq) and 27-171min (70.4\u00b124.9 minutes), respectively. 18F-FDG with a radiochemical purity of 95% was provided. Patients were allowed to breathe normally during PET and CT acquisitions. Attenuation correction of PET images was performed using CT data with the hybrid segmentation method.\u00a0 Attenuation corrections were performed using a CT protocol (180mAs,120kV,1.0pitch). Each study comprised one CT volume, one PET volume and fused PET and CT images: the CT resolution was 512 \u00d7 512 pixels at 1mm \u00d7 1mm, the PET resolution was 200 \u00d7 200 pixels at 4.07mm \u00d7 4.07mm, with a slice thickness and an interslice distance of 1mm. Both volumes were reconstructed with the same number of slices. Three-dimensional (3D) emission and transmission scanning were acquired from the base of the skull to mid femur. The PET images were reconstructed via the TrueX TOF method with a slice thickness of 1mm.\u00a0\u00a0<\/p><p>The location of each tumor was annotated by five academic thoracic radiologists with expertise in lung cancer to make this dataset a useful tool and resource for developing algorithms for medical diagnosis.\u00a0 Two of the radiologists had more than 15 years of experience and the others had more than 5 years of experience. After one of the radiologists labeled each subject the other four radiologists performed a verification, resulting in all five radiologists reviewing each annotation file in the dataset.\u00a0\u00a0Annotations were captured using <a href=\"https:\/\/pypi.org\/project\/labelImg\/\">Labellmg<\/a>.\u00a0\u00a0The image annotations are saved as XML files in PASCAL VOC format, which can be parsed using the PASCAL Development Toolkit:\u00a0\u00a0<a href=\"https:\/\/pypi.org\/project\/pascal-voc-tools\/\">https:\/\/pypi.org\/project\/pascal-voc-tools\/<\/a>.\u00a0 Python code to visualize the annotation boxes on top of the DICOM images can be <a href=\"\/wp-content\/uploads\/VisualizationTools.zip\" download=\"VisualizationTools.zip\">downloaded here<\/a>.<\/p><p>Two deep learning researchers used the images and the corresponding annotation files to train several well-known detection models which resulted in a\u00a0maximum <em>a posteriori<\/em> probability (MAP)\u00a0of around 0.87 on the validation set.\u00a0<\/p>","collection_acknowledgements":"<p>We would like to acknowledge the individuals and institutions that have provided data for this collection:<\/p><ul><li><p>Drs. Huiping Han, Funing Yang and Rui Wang for their help collecting data<\/p><\/li><li><p>The Computer Center and Cancer Institute at the Second Affiliated\u00a0Hospital of Harbin\u00a0Medical\u00a0University in Harbin, Heilongjiang Province, China for their help collecting the image data<\/p><\/li><li><p>Beijing Municipal Administration of Hospital Clinical Medicine Development of Special Funding (ZYLX201511)<\/p><\/li><\/ul>","collection_funding":"","hide_from_browse_table":"0","program":["Community"],"_links":{"self":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/collections\/41365","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/collections"}],"about":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/wp\/v2\/types\/tcia_collection"}],"version-history":[{"count":1,"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/collections\/41365\/revisions"}],"predecessor-version":[{"id":47667,"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/collections\/41365\/revisions\/47667"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/stage.cancerimagingarchive.net\/api\/wp\/v2\/media\/6619"}],"wp:attachment":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/wp\/v2\/media?parent=41365"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}