{"id":43005,"date":"2023-11-20T03:04:23","date_gmt":"2023-11-20T09:04:23","guid":{"rendered":"https:\/\/stage.cancerimagingarchive.net\/collection\/nsclc-radiomics\/"},"modified":"2024-10-24T14:33:35","modified_gmt":"2024-10-24T19:33:35","slug":"nsclc-radiomics","status":"publish","type":"tcia_collection","link":"https:\/\/stage.cancerimagingarchive.net\/collection\/nsclc-radiomics\/","title":{"rendered":"NSCLC-RADIOMICS"},"featured_media":7435,"template":"","class_list":["post-43005","tcia_collection","type-tcia_collection","status-publish","has-post-thumbnail"],"cancer_types":["Lung Cancer"],"citations":[42979,42981,9225],"collection_doi":"10.7937\/K9\/TCIA.2015.PF0M9REI","collection_download_info":"","collection_downloads":[42983,42985],"versions":[42999,43001,43003],"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=nsclc_radiomics\">Imaging Data Commons (IDC)<\/a> (Imaging Data)<\/li>\r\n \t<li>IDC Zenodo community dataset <a class=\"external-link\" href=\"https:\/\/zenodo.org\/doi\/10.5281\/zenodo.7473970\" target=\"_blank\" rel=\"nofollow noopener\">AI-derived annotations for the NLST and NSCLC-Radiomics computed tomography imaging collections<\/a><\/li>\r\n<\/ul>","cancer_locations":["Lung"],"collection_page_accessibility":"Public","publications_related":"<span style=\"color: #ffffff;\">.<\/span>","version_change_log_archived":"<h3>Version 4 (Current): Updated 2020\/10\/22<\/h3><table><colgroup><col \/><col \/><\/colgroup><tbody><tr><th colspan=\"1\">Data Type<\/th><th colspan=\"1\">Download all or Query\/Filter<\/th><\/tr><tr><td colspan=\"1\">Images (DICOM, 33 GB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLC-Radiomics-Version-4-Oct-2020-NBIA-manifest.tcia\" download=\"NSCLC-Radiomics-Version-4-Oct-2020-NBIA-manifest.tcia\"><button><i><\/i> Download<\/button><\/a>\u00a0 <a href=\"https:\/\/nbia.cancerimagingarchive.net\/nbia-search\/?MinNumberOfStudiesCriteria=1&amp;CollectionCriteria=NSCLC-Radiomics\"><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\">Lung1 clinical (CSV)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLC-Radiomics-Lung1.clinical-version3-Oct-2019.csv\" download=\"NSCLC-Radiomics-Lung1.clinical-version3-Oct-2019.csv\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table><ul><li>RTSTRUCT and SEG study instance UID changed to match study instance uid with associated CT image.<\/li><li>Added missing structures in SEG files to match associated RTSTRUCTs.<\/li><li>Patient Id copied to Patient Name in CT images (for consistency).<\/li><li>Added 1 missing image for LUNG1-246.<\/li><\/ul><h3>Version 3: Updated 2019\/10\/23<\/h3><table><colgroup><col \/><col \/><\/colgroup><tbody><tr><th colspan=\"1\">Data Type<\/th><th colspan=\"1\">Download all or Query\/Filter<\/th><\/tr><tr><td colspan=\"1\">Images (DICOM, 29GB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLC-Radiomics-V3-Oct2019.NBIA-manifest.tcia\" download=\"NSCLC-Radiomics-V3-Oct2019.NBIA-manifest.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\">Lung1 clinical (CSV)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLC-Radiomics-Lung1.clinical-version3-Oct-2019.csv\" download=\"NSCLC-Radiomics-Lung1.clinical-version3-Oct-2019.csv\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table><ul><li>Re-checked and updated the RTSTRUCT files to amend issues in the previous submission due to missing RTSTRUCTS or regions of interest that were not vertically aligned with the patient image.<\/li><li>In 4 cases (LUNG1-083,LUNG1-095,LUNG1-137,LUNG1-246) re-submitted the correct CT images.<\/li><li>The regions of interest now include the primary lung tumor labelled as \u201cGTV-1\u201d, as well as organs at risk.<\/li><li>For one case (LUNG1-128) the subject does not have GTV-1 because it was actually a post-operative case; we retained the CT scan here for completeness.<\/li><li>Added DICOM SEGMENTATION objects to the collection, which makes it easier to search and retrieve the GTV-1 binary mask for re-use in quantitative imaging research.<\/li><li>Clinical data updated as\u00a0follow-up time has been extended.<\/li><\/ul><h3>Version 2: Updated 2016\/05\/31\u00a0<\/h3><table><colgroup><col \/><col \/><\/colgroup><tbody><tr><th colspan=\"1\">Data Type<\/th><th colspan=\"1\">Download all or Query\/Filter<\/th><\/tr><tr><td colspan=\"1\">Images (DICOM, 25GB)<\/td><td colspan=\"1\"><div><p>\u00a0not available, see version 3<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\">Lung1 clinical (CSV)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/Lung1.clinical_-version-1-and-version2.csv\" download=\"Lung1.clinical_-version-1-and-version2.csv\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table><p>\u00a0Added 318 RTSTRUCT files for existing subject imaging data.\u00a0(NOTE: version 2 removed as RTSTRUCTs or regions of interest were not vertically aligned with patient images. See version 3 for updated files).<\/p><h3>Version 1: Updated 2014\/07\/02<\/h3><table><colgroup><col \/><col \/><\/colgroup><tbody><tr><th colspan=\"1\">Data Type<\/th><th colspan=\"1\">Download all or Query\/Filter<\/th><\/tr><tr><td colspan=\"1\">Images (DICOM, 25GB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/TCIA_NSCLC-Radiomics_06-22-2015.tcia\" download=\"TCIA_NSCLC-Radiomics_06-22-2015.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\">Lung1 clinical (CSV)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/Lung1.clinical_-version-1-and-version2.csv\" download=\"Lung1.clinical_-version-1-and-version2.csv\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table>","collection_status":"Ongoing","publications_using":"TCIA maintains <a href=\"https:\/\/www.cancerimagingarchive.net\/publications\/\">a list of publications<\/a> which leverage our data. If you have a publication you'd like to add, please <a href=\"http:\/\/www.cancerimagingarchive.net\/support\/\">contact TCIA's Helpdesk<\/a>.","related_analysis_results":[45529,46039,46301],"species":["Human"],"version_number":"4","collection_title":"NSCLC-Radiomics","date_updated":"2020-10-22","related_collection":false,"subjects":"422","analysis_results":"","collection_short_title":"NSCLC-Radiomics","data_types":["CT","RTSTRUCT","SEG"],"version_change_log":"<ul>\r\n \t<li>RTSTRUCT and SEG study instance UID changed to match study instance uid with associated CT image.<\/li>\r\n \t<li>Added missing structures in SEG files to match associated RTSTRUCTs.<\/li>\r\n \t<li>Patient Id copied to Patient Name in CT images (for consistency).<\/li>\r\n \t<li>Added 1 missing image for LUNG1-246.<\/li>\r\n<\/ul>","collection_browse_title":"NSCLC-Radiomics","detailed_description":"<h4>Radiation Oncologist Tumor Segmentations<\/h4>\r\nThe DICOM Radiotherapy Structure Sets (RTSTRUCT) and DICOM Segmentation (SEG) files in this data contain a manual delineation by a radiation oncologist of the 3D volume of the primary gross tumor volume (\"GTV-1\") and selected anatomical structures (i.e., lung, heart and esophagus). Of note, DICOM SEG objects contain a subset of annotations available in RTSTRUCT.\r\n\r\nFor viewing the annotations the authors recommend <a href=\"https:\/\/www.slicer.org\/\">3D Slicer<\/a> that can be used to view both RTSTRUCT and SEG annotations (make sure you install the SlicerRT and QuantitativeReporting extensions first!). Visualization of the DICOM annotations is also supported by the <a href=\"https:\/\/github.com\/OHIF\/Viewers\">OHIF Viewer<\/a>.\r\n\r\nOther tools include:\r\n<ul>\r\n \t<li><a href=\"http:\/\/www.dicompyler.com\/\">Dicompyler<\/a>\u00a0is an open source, cross-platform DICOM RT viewer.<\/li>\r\n \t<li>The\u00a0<a href=\"https:\/\/github.com\/dicom\/rtkit\">Radiotherapy DICOM toolkit<\/a>, which may also be useful for working with this data.<\/li>\r\n \t<li><a href=\"https:\/\/github.com\/QIICR\/dcmqi\">dcmqi<\/a> and <a href=\"https:\/\/plastimatch.org\/\">Plastimatch<\/a>\u00a0libraries can be used to support conversion of the DICOM SEG and RTSTRUCT representations, respectively, into the popular research formats, such as NIfTI or NRRD.<\/li>\r\n<\/ul>\r\n<h4>Clinical Data<\/h4>\r\nCorresponding clinical data can be found here:\u00a0<a href=\"\/wp-content\/uploads\/NSCLC-Radiomics-Lung1.clinical-version3-Oct-2019.csv\" download=\"NSCLC-Radiomics-Lung1.clinical-version3-Oct-2019.csv\" data-linked-resource-container-id=\"16056854\" data-linked-resource-container-version=\"100\" data-linked-resource-content-type=\"text\/csv\" data-linked-resource-default-alias=\"NSCLC Radiomics Lung1.clinical-version3-Oct 2019.csv\" data-linked-resource-id=\"61080977\" data-linked-resource-type=\"attachment\" data-linked-resource-version=\"1\">Lung1.clinical.csv<\/a>.\r\n\r\nPlease note that survival time is measured in days from start of treatment. DICOM patients names are identical in TCIA and clinical data file.\r\n\r\nThe deadstatus.event follows the standard epidemiological \/ biomedical definition for time to event survival modelling whereby :\r\n\r\n1 == \u201cdeath has occurred at the time interval value stated on the next column\u201d, hence\r\n\r\n0 == \u201cdeath has NOT occurred up until the time interval value stated in the next column, and is therefore right-censored\u201d.\r\n<h4>Note:<\/h4>\r\nSome CT (\u00a0LUNG1-014 ,\u00a0\u00a0LUNG1-021 ,\u00a0\u00a0LUNG1-085)\u00a0\u00a0are missing some slices from the complete volume, unfortunately not detected until recently. The skipped CT slice did not cut through the Gross Tumour Volume which was the principal focus of this Collection. We understand the user may have a different principal focus for re-using this collection, but perhaps some other workaround like interpolation may be timely and feasible for those affected volumes.","supporting_data":["Clinical","Image Analyses"],"collection_featured_image":{"ID":"7435","post_author":"29","post_date":"2023-09-13 09:40:11","post_date_gmt":"2023-09-13 14:40:11","post_content":"","post_title":"image2014-7-1-134711","post_excerpt":"","post_status":"inherit","comment_status":"closed","ping_status":"closed","post_password":"","post_name":"image2014-7-1-134711","to_ping":"","pinged":"","post_modified":"2023-11-20 03:04:24","post_modified_gmt":"2023-11-20 09:04:24","post_content_filtered":"","post_parent":"43005","guid":"https:\/\/stage.cancerimagingarchive.net\/wp-content\/uploads\/image2014-7-1-134711.png","menu_order":"0","post_type":"attachment","post_mime_type":"image\/png","comment_count":"0","pod_item_id":"7435"},"collection_summary":"<p>This collection contains images from 422 non-small cell lung cancer (NSCLC) patients. For these patients pretreatment CT scans, manual delineation by a radiation oncologist of the 3D volume of the gross tumor volume and clinical outcome data are available. This dataset refers to the Lung1 dataset of the <a href=\"http:\/\/www.nature.com\/ncomms\/2014\/140603\/ncomms5006\/full\/ncomms5006.html\">study published in Nature Communications<\/a>.<\/p><p>&nbsp;<\/p><p>In short, this publication applies a radiomic approach to computed tomography data of 1,019 patients with lung or head-and-neck cancer. Radiomics refers to the comprehensive quantification of tumour phenotypes by applying a large number of quantitative image features. In present analysis 440 features quantifying tumour image intensity, shape and texture, were extracted.\u00a0 We found that a large number of radiomic features have prognostic power in independent data sets, many of which were not identified as significant before. Radiogenomics analysis revealed that a prognostic radiomic signature, capturing intra-tumour heterogeneity, was associated with underlying gene-expression patterns. These data suggest that radiomics identifies a general prognostic phenotype existing in both lung and head-and-neck cancer. This may have a clinical impact as imaging is routinely used in clinical practice, providing an unprecedented opportunity to improve decision-support in cancer treatment at low cost.\u00a0The DICOM Radiotherapy Structure Sets (RTSTRUCT) and DICOM Segmentation (SEG) files in this data contain a manual delineation by a radiation oncologist of the 3D volume of the primary gross tumor volume (\"GTV-1\") and selected anatomical structures (i.e., lung, heart and esophagus). Of note, DICOM SEG objects contain a subset of annotations available in RTSTRUCT.<br \/><br \/>The dataset described here (Lung1) was used to build a prognostic radiomic signature. The Lung3 dataset used to investigate the association of radiomic imaging features with gene-expression profiles consisting of 89 NSCLC CT scans with outcome data can be found here: <a href=\"https:\/\/doi.org\/10.7937\/k9\/tcia.2015.l4fret6z\" target=\"_blank\" rel=\"noopener\">NSCLC-Radiomics-Genomics<\/a>.<\/p><p>Other data sets in the Cancer Imaging Archive that were used in the same <a href=\"http:\/\/www.nature.com\/ncomms\/2014\/140603\/ncomms5006\/full\/ncomms5006.html\">study published in Nature Communications<\/a>: <a href=\"https:\/\/doi.org\/10.7937\/tcia.2019.8kap372n\">Head-Neck-Radiomics-HN1<\/a>, <a href=\"https:\/\/doi.org\/10.7937\/tcia.2019.cwvlpd26\">NSCLC-Radiomics-Interobserver1<\/a>, <a href=\"https:\/\/doi.org\/10.7937\/tcia.2020.jit9grk8\" target=\"_blank\" rel=\"noopener\">RIDER-LungCT-Seg<\/a>.<\/p><p><a href=\"\/wp-content\/uploads\/NSCLC-RADIOMICS-GRAPHIC.jpg\" rel=\"prettyPhoto noopener\"><img class=\"cm-inline-img-css alignright wp-image-812 size-medium\" src=\"\/wp-content\/uploads\/NSCLC-RADIOMICS-GRAPHIC.jpg\" \/><\/a><\/p><p>For scientific or other inquiries about this dataset,\u00a0please\u00a0<a href=\"http:\/\/www.cancerimagingarchive.net\/support\/\">contact TCIA's Helpdesk<\/a>.<\/p>","collection_acknowledgements":"<p>We would like to acknowledge the individuals and institutions that have provided data for this collection:<\/p><ul><li>Leonard Wee, MAASTRO (Dept of Radiotherapy), Maastricht University Medical Centre+, Maastricht, Limburg, The Netherlands.<\/li><li>Dirk de\u00a0Ruysscher, MAASTRO (Dept of Radiotherapy), Maastricht University Medical Centre+, Maastricht, Limburg, The Netherlands.<\/li><li>Andre Dekker, MAASTRO (Dept of Radiotherapy), Maastricht University Medical Centre+, Maastricht, Limburg, The Netherlands.<\/li><li>Hugo\u00a0Aerts, Computational Imaging and Bioinformatic Laboratory, Dana-Farber Cancer Institute &amp; Harvard Medical School, Boston, Massachusetts, USA.<\/li><li>Harmonization of the components of this dataset, including into\u00a0standard DICOM representation, was supported in part by the NCI\u00a0Imaging Data Commons consortium. NCI Imaging Data Commons consortium\u00a0is supported by the contract number 19X037Q from Leidos Biomedical\u00a0Research under Task Order HHSN26100071 from NCI.<\/li><\/ul>","collection_funding":"","hide_from_browse_table":"0","program":["Community"],"_links":{"self":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/collections\/43005","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\/43005\/revisions"}],"predecessor-version":[{"id":47609,"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/collections\/43005\/revisions\/47609"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/stage.cancerimagingarchive.net\/api\/wp\/v2\/media\/7435"}],"wp:attachment":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/wp\/v2\/media?parent=43005"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}