{"id":42977,"date":"2023-11-20T03:02:52","date_gmt":"2023-11-20T09:02:52","guid":{"rendered":"https:\/\/stage.cancerimagingarchive.net\/collection\/nsclc-radiogenomics\/"},"modified":"2024-10-30T20:48:43","modified_gmt":"2024-10-31T01:48:43","slug":"nsclc-radiogenomics","status":"publish","type":"tcia_collection","link":"https:\/\/stage.cancerimagingarchive.net\/collection\/nsclc-radiogenomics\/","title":{"rendered":"NSCLC-RADIOGENOMICS"},"featured_media":28305,"template":"","class_list":["post-42977","tcia_collection","type-tcia_collection","status-publish","has-post-thumbnail"],"cancer_types":["Non-small Cell Lung Cancer"],"citations":[42945,42947,42949,9225],"collection_doi":"10.7937\/K9\/TCIA.2017.7hs46erv","collection_download_info":"","collection_downloads":[42951,42953,42955],"versions":[42971,42973,42975],"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_radiogenomics\">Imaging Data Commons (IDC)<\/a>\u00a0(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\nThe 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><a href=\"https:\/\/www.ncbi.nlm.nih.gov\/geo\/query\/acc.cgi?acc=GSE103584\">RNA sequence data<\/a>\u00a0 (Note: 130 subject subset)<\/li>\r\n<\/ul>","cancer_locations":["Chest"],"collection_page_accessibility":"Public","publications_related":"The Collection authors recommend these readings to give context to this dataset","version_change_log_archived":"<h3>Version 4 (Current): Updated 2021\/06\/01<\/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, 97.6 GB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLC_Radiogenomics-6-1-21-Version-4.tcia\" download=\"NSCLC_Radiogenomics-6-1-21-Version-4.tcia\"><button><i><\/i> Download<\/button><\/a>\u00a0 <a href=\"https:\/\/nbia.cancerimagingarchive.net\/nbia-search\/?MinNumberOfStudiesCriteria=1&amp;CollectionCriteria=NSCLC%20Radiogenomics\"><button><i><\/i> Search<\/button><\/a>\u00a0 \u00a0<a href=\"https:\/\/www.cancerimagingarchive.net\/nbia-search\/?saved-cart=nbia-89251605025862692\">\u00a0<\/a><\/p><p>(Download requires\u00a0the\u00a0<a href=\"\/display\/NBIA\/Downloading+TCIA+Images\">NBIA Data Retriever<\/a>)<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\"><p>AIM Annotations (XML, zip)<\/p><\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/AIM_files_updated-11-10-2020.zip\" download=\"AIM_files_updated-11-10-2020.zip\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\">Clinical Data (csv)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLCR01Radiogenomic_DATA_LABELS_2018-05-22_1500-shifted.csv\" download=\"NSCLCR01Radiogenomic_DATA_LABELS_2018-05-22_1500-shifted.csv\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table><ul><li>Added missing image studies for the following cases: R01-009 (CT), R01-100 (PET\/CT), and R01-111 (PET\/CT).<\/li><li>SUV conversion factor DICOM tag (7053,1000) was added for the following Philips PET images: R01-074, R01-077, R01-079, R01-089, R01-98 and R01-137.<\/li><\/ul><h3>Version 3: Updated 2020\/11\/10<\/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, 97.6 GB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLC_Radiogenomics-11-10-2020-Version-3.tcia\" download=\"NSCLC_Radiogenomics-11-10-2020-Version-3.tcia\"><button><i><\/i> Download<\/button><\/a>\u00a0 \u00a0(Download requires\u00a0the\u00a0<a href=\"\/display\/NBIA\/Downloading+TCIA+Images\">NBIA Data Retriever<\/a>)<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\"><p>AIM Annotations (XML, zip)<\/p><\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/AIM_files_updated-11-10-2020.zip\" download=\"AIM_files_updated-11-10-2020.zip\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\">Clinical Data (csv)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLCR01Radiogenomic_DATA_LABELS_2018-05-22_1500-shifted.csv\" download=\"NSCLCR01Radiogenomic_DATA_LABELS_2018-05-22_1500-shifted.csv\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table><ul><li>A new version of RO1-023 was created to correct a cranial-caudal flip of the segmentation of the CT volume (483 images) and associated Segmentation object. The UIDs of the other scans were updated to preserve Study level consistency but were otherwise unmodified. The referenced UIDs within the AIM object for RO1-023 were updated and renamed to RO1-023v1.<\/li><li>RO1-038 was updated to remove a coronal slice at the start of the of the CT volume. This created difficulty for some software to determine slice spacing.<\/li><\/ul><h3>Version 2: Updated 2017\/02\/28<\/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, 97.6 GB)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLC_Radiogenomics-Version-2-2017.tcia\" download=\"NSCLC_Radiogenomics-Version-2-2017.tcia\"><button><i><\/i> Download<\/button><\/a>\u00a0 (Download requires\u00a0the\u00a0<a href=\"\/display\/NBIA\/Downloading+TCIA+Images\">NBIA Data Retriever<\/a>)<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\">AIM Annotations (XML, zip)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/AIM_files_updated-5-31-2018.zip\" download=\"AIM_files_updated-5-31-2018.zip\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><tr><td colspan=\"1\">Clinical Data (csv)<\/td><td colspan=\"1\"><div><p><a href=\"\/wp-content\/uploads\/NSCLCR01Radiogenomic_DATA_LABELS_2018-05-22_1500-shifted.csv\" download=\"NSCLCR01Radiogenomic_DATA_LABELS_2018-05-22_1500-shifted.csv\"><button><i><\/i> Download<\/button><\/a>\u00a0<\/p><\/div><\/td><\/tr><\/tbody><\/table><h3>Version 1: Updated 2015\/12\/22<\/h3><p>This collection was originally submitted to TCIA as a 26 subject pilot data set. You can learn more about that subset of the collection in the following Analysis Results publication:<\/p><p><a href=\"http:\/\/doi.org\/10.7937\/K9\/TCIA.2014.X7ONY6B1\">NSCLC Radiogenomics: Initial Stanford Study of 26 Cases<\/a><\/p><table><colgroup> <col \/> <\/colgroup><thead><tr><th colspan=\"1\">\u00a0<\/th><\/tr><\/thead><tbody><tr><td colspan=\"1\">\u00a0<\/td><\/tr><\/tbody><\/table>","collection_status":"Complete","publications_using":"TCIA maintains\u00a0<a href=\"https:\/\/commons.datacite.org\/doi.org\/10.7937\/K9\/TCIA.2017.7hs46erv\">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":[45779,45927,46301],"species":["Human"],"version_number":"4","collection_title":"NSCLC Radiogenomics","date_updated":"2021-06-01","related_collection":false,"subjects":"211","analysis_results":"","collection_short_title":"NSCLC Radiogenomics","data_types":["PT","CT","SEG"],"version_change_log":"<ul>\r\n \t<li>Added missing image studies for the following cases: R01-009 (CT), R01-100 (PET\/CT), and R01-111 (PET\/CT).<\/li>\r\n \t<li>SUV conversion factor DICOM tag (7053,1000) was added for the following Philips PET images: R01-074, R01-077, R01-079, R01-089, R01-98 and R01-137.<\/li>\r\n<\/ul>","collection_browse_title":"NSCLC Radiogenomics","detailed_description":"This collection was originally submitted to TCIA as a 26 subject pilot data set. You can learn more about that subset of the collection in the following <u> <a href=\"http:\/\/www.cancerimagingarchive.net\/analysis-results\/\">Analysis Results<\/a> <\/u> publication:\r\n\r\nData Citation\r\n<div>\r\n\r\nNapel, Sandy, &amp; Plevritis, Sylvia K. (2014). <strong>NSCLC Radiogenomics: Initial Stanford Study of 26 Cases<\/strong>. The Cancer Imaging Archive. <a href=\"http:\/\/doi.org\/10.7937\/K9\/TCIA.2014.X7ONY6B1\">http:\/\/doi.org\/10.7937\/K9\/TCIA.2014.X7ONY6B1<\/a>\r\n\r\n<\/div>","supporting_data":["Clinical","Image Analyses","Genomics"],"collection_featured_image":{"ID":"28305","post_author":"29","post_date":"2023-11-08 18:18:52","post_date_gmt":"2023-11-09 00:18:52","post_content":"","post_title":"nsclc-featured","post_excerpt":"","post_status":"inherit","comment_status":"closed","ping_status":"closed","post_password":"","post_name":"nsclc-featured","to_ping":"","pinged":"","post_modified":"2023-11-20 17:13:13","post_modified_gmt":"2023-11-20 23:13:13","post_content_filtered":"","post_parent":"42977","guid":"https:\/\/stage.cancerimagingarchive.net\/nsclc-featured\/","menu_order":"0","post_type":"attachment","post_mime_type":"image\/png","comment_count":"0","pod_item_id":"28305"},"collection_summary":"<p>Medical image biomarkers of cancer promise improvements in patient care through\u00a0advances in precision medicine. Compared to genomic biomarkers, image\u00a0biomarkers\u00a0provide the advantages of being a non-invasive procedure, and characterizing a\u00a0heterogeneous tumor in its entirety, as opposed to limited tissue available for\u00a0biopsy. We\u00a0developed a unique radiogenomic dataset from a Non-Small Cell Lung Cancer (NSCLC) cohort\u00a0of 211 subjects. The dataset comprises Computed\u00a0Tomography (CT), Positron Emission\u00a0Tomography (PET)\/CT images, semantic annotations of the tumors as observed on the\u00a0medical images using a controlled\u00a0vocabulary, segmentation maps of tumors in the CT scans,\u00a0and quantitative values obtained from the PET\/CT scans. Imaging data are also paired with\u00a0gene mutation,\u00a0RNA sequencing data from samples of surgically excised tumor tissue, and\u00a0clinical data, including survival outcomes. This dataset was created to facilitate the discovery\u00a0of the underlying relationship between genomic and medical image features, as well as the\u00a0development and evaluation of prognostic medical image biomarkers.<\/p><p>Further details regarding this data-set may be found in Bakr, et. al, Sci Data. 2018 Oct 16;5:180202. doi: <a href=\"https:\/\/doi.org\/10.1038\/sdata.2018.202\">10.1038\/sdata.2018.202<\/a>, <a href=\"https:\/\/www.ncbi.nlm.nih.gov\/pubmed\/30325352\">https:\/\/www.ncbi.nlm.nih.gov\/pubmed\/30325352<\/a>.<\/p><p>For scientific and other inquiries about this dataset, please\u00a0<a href=\"http:\/\/www.cancerimagingarchive.net\/support\/\">contact TCIA's Helpdesk<\/a>.<\/p>","collection_acknowledgements":"","collection_funding":"","hide_from_browse_table":"0","program":["Community"],"_links":{"self":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/collections\/42977","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\/42977\/revisions"}],"predecessor-version":[{"id":47421,"href":"https:\/\/stage.cancerimagingarchive.net\/api\/v1\/collections\/42977\/revisions\/47421"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/stage.cancerimagingarchive.net\/api\/wp\/v2\/media\/28305"}],"wp:attachment":[{"href":"https:\/\/stage.cancerimagingarchive.net\/api\/wp\/v2\/media?parent=42977"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}