Summary
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location | https://www.cancerimagingarchive.net/collection/tcga-luad/ |
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The Cancer Genome Atlas Lung Adenocarcinoma (TCGA-LUAD) data collection is part of a larger effort to enhance the to build a research community focused on connecting cancer phenotypes to genotypes by providing clinical images matched to subjects from The Cancer Genome Atlas (TCGA) data set with characterized radiological images. The Cancer Imaging Program (CIP) with the cooperation of several of the TCGA tissue-contributing institutions has archived a large portion of the radiological images of the genetically-analyzed Lung adenocarcinoma (LUAD) cases. Clinical, genetic, and |
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pathological data resides in |
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the Genomic Data Commons (GDC) Data Portal while the radiological data is stored on The Cancer Imaging Archive (TCIA). |
Matched The data utilizes the same TCGA patient identifiers in both repositories, allowing allow researchers to explore the TCGA/TCIA databases for correlations between tissue genotype and , radiological phenotype . This Collection within TCIA is related to the LUAD disease type within TCGA.Note: Per TCGA Guidelines, formal permission requests are still required for publications using TCGA-LUAD data. More info about TCGA Publication Policies can be found on the Data Usage Policies and Restrictions page.and patient outcomes. Tissues for TCGA were collected from many sites all over the world in order to reach their accrual targets, usually around 500 specimens per cancer type. For this reason the image data sets are also extremely heterogeneous in terms of scanner modalities, manufacturers and acquisition protocols. In most cases the images were acquired as part of routine care and not as part of a controlled research study or clinical trial.
CIP TCGA Radiology Initiative
The Cancer Imaging Program is supporting multiple projects within the academic community to encourage cross disciplinary research which utilizes the data provided in these resources. Much more can be learned about this effort on the Imaging Source Site (ISS) Groups are being populated and governed by participants from institutions that have provided imaging data to the archive for a given cancer type. Modeled after TCGA analysis groups, ISS groups are given the opportunity to publish a marker paper for a given cancer type per the guidelines in the table above. This opportunity will generate increased participation in building these multi-institutional data sets as they become an open community resource. Learn more about the TCGA Lung Phenotype Research Group page.
How to retrieve the images from TCIA
Imaging Data
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You can view and download these images on The Cancer Imaging Archive by logging in to TCIA and selecting the TCGA-LUAD collection. A full listing of the available imaging studies/series for each patient can be found in this spreadsheet: TCGA-LUAD.XLSX |
Collection Statistics | (updated 2013/12/03) |
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Modalities | CT, PT |
Number of Patients | 64 |
Number of Studies | 147 |
Number of Series | 606 |
Number of Images | 46,415 |
If you are unsure how to download this Collection please view our quick guide on Searching by Collection or refer to our The Cancer Imaging Archive User's Guide for more detailed instructions on using the site.
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Acknowledgements
We would like to acknowledge the individuals and institutions that have provided data for this collection:
- Washington University in St. Louis, St. Louis, MO - Special thanks to Brad Albertina from the Barnes-Jewish Hospital Department of Radiology and Mark Watson, MD, Ph.D. from the Tissue Procurement and Multiplexed Gene Analysis Laboratories, Washington University School of Medicine.
- University of Pittsburgh/UPMC, Pittsburgh, PA - Special thanks to Chandra Holback, MD and Rose Jarosz.
- University of North Carolina, Chapel Hill, NC - Special thanks to J. Keith Smith, MD, Ph.D. and Shanah Kirk from the Department of Radiology.
- Lahey Hospital & Medical Center, Burlington, MA - Special thanks to John Lemmerman, RT and Kimberly Reiger-Christ, PhD, Cancer Research, Sophia Gordon Cancer Center.
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active | true |
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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 (DICOM, 18.3GB) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/doiJNLP-TCGA-LUAD-01-30-2017.tcia?version=1&modificationDate=1534786963773&api=v2 |
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label | Search |
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url | https://www.cancerimagingarchive.net/nbia-search/?CollectionCriteria=TCGA-LUAD |
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Click the Versions tab for more info about data releases. Additional Resources for this DatasetThe 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. Third Party Analyses of this DatasetTCIA encourages the community to publish your analyses of our datasets. Below is a list of such third party analyses published using this Collection: |
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title | Detailed Description |
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| Detailed Description | |
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Modalities | CT, PT, NM | Number of Participants | 69 | Number of Studies | 152 | Number of Series | 624 | Number of Images | 48,931 | Images Size (GB) | 18.3 |
GDC Data Portal - Clinical and Genomic DataThe GDC Data Portal has extensive clinical and genomic data, which can be matched to the patient identifiers on the images here in TCIA. Below is a snapshot of clinical data extracted on 1/5/2016. Explanations of the clinical data can be found on the Biospecimen Core Resource Clinical Data Forms linked below: A Note about TCIA and TCGA Subject Identifiers and DatesNOTE: On 12/3/12 TCIA staff were alerted to the fact that the middle 2 digits in the patient identifiers of images were not consistent with those on the TCGA Data Portal |
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(e.g. patient TCGA-93-Z011 should have been TCGA-17-Z011). This was corrected and the data was re-posted on 12/5/12 so that all subjects now have 17 digits as intended |
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Related Data
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Verbose explanations of the clinical data can be found on the Biospecimen Core Resource Clinical Data Forms linked below:
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a subject with radiology images stored in |
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is identified with a Patient ID that is identical to the Patient ID of the same subject with demographic, clinical, pathological, and/or genomic data stored in |
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For each TCGA case, the baseline TCGA imaging studies found on TCIA are |
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TCIA and TCGA handle dates differently, and there are no immediate plans to reconcile: |
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- birth dates, imaging study dates, etc.) in the Digital Imaging and Communications in Medicine (DICOM) headers of TCIA radiology images have been offset by a random number of days.
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- The offset is a number of days between 3 and 10 years prior to the real date that is consistent for each TCIA image-submitting site and collection, but that varies among sites and among collections from the same site.
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- Thus, the number of days between a subject’s longitudinal imaging studies are accurately preserved when more than one study has been archived while still meeting HIPAA requirements.
- TCGA Dates:
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- the patient demographic and clinical event dates are all the number of days from the index date, which is the actual date of pathologic
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- diagnosis. So all the dates in the data are relative negative or positive integers, except for the “days_to_pathologic_diagnosis” value, which is 0 – the index date. The years of birth and
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- diagnosis are maintained in the distributed clinical data file. The NCI retains a copy of the data with complete dates, but those data are not made available.With regard to other TCGA dates, if a date comes from a HIPAA “covered entity’s” medical record, it is turned into the relative day count from the index date. Dates like the date TCGA received the specimen or when the TCGA case report form was filled out are not such covered dates, and they will appear as real dates (month, day, and year).
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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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Info |
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| Albertina, B., Watson, M., Holback, C., Jarosz, R., Kirk, S., Lee, Y., Rieger-Christ, K., & Lemmerman, J. (2016). The Cancer Genome Atlas Lung Adenocarcinoma Collection (TCGA-LUAD) (Version 4) [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2016.JGNIHEP5 |
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| "The results <published or shown> here are in whole or part based upon data generated by the TCGA Research Network: http://cancergenome.nih.gov/." |
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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 our data. If you have a manuscript you'd like to add please contact TCIA's Helpdesk. |
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| Version 4 (Current): Updated 2020/05/29Data Type | Download all or Query/Filter |
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Images (DICOM, 18.3GB) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/doiJNLP-TCGA-LUAD-01-30-2017.tcia?version=1&modificationDate=1534786963773&api=v2 |
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label | Search |
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url | https://www.cancerimagingarchive.net/nbia-search/?CollectionCriteria=TCGA-LUAD |
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(Download requires the NBIA Data Retriever) | Tissue Slide Images (web) |
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label | Search |
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url | https://portal.gdc.cancer.gov/image-viewer?filters=%7B%22op%22%3A%22and%22%2C%22content%22%3A%5B%7B%22content%22%3A%7B%22field%22%3A%22cases.case_id%22%2C%22value%22%3A%5B%22set_id%3AYEEmK4gB-Ny-1EyOwW07%22%5D%7D%2C%22op%22%3A%22IN%22%7D%2C%7B%22op%22%3A%22in%22%2C%22content%22%3A%7B%22field%22%3A%22cases.project.project_id%22%2C%22value%22%3A%5B%22TCGA-LUAD%22%5D%7D%7D%2C%7B%22op%22%3A%22in%22%2C%22content%22%3A%7B%22field%22%3A%22files.data_type%22%2C%22value%22%3A%5B%22Slide%20Image%22%5D%7D%7D%5D%7D |
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| Clinical Data (TXT) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/gdc_download_clinical_luad.tar.gz?version=1&modificationDate=1590774168840&api=v2 |
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| Biomedical Data (TXT) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/gdc_download_biomedical_luad.tar.gz?version=1&modificationDate=1590774155199&api=v2 |
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| Genomics (web) |
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label | Search |
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url | https://portal.gdc.cancer.gov/projects/TCGA-LUAD |
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Updated clinical data link with latest spreadsheets from GDC. Added new biomedical spreadsheets from GDC. Version 3: Updated 2017/01/30Data Type | Download all or Query/Filter |
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Images (DICOM, 18.3GB) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/doiJNLP-TCGA-LUAD-01-30-2017.tcia?version=1&modificationDate=1534786963773&api=v2 |
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(Download requires the NBIA Data Retriever) | Clinical Data (TXT) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/TCGA-LUAD%20Clinical%20Data%201516.zip?version=1&modificationDate=1452103104183&api=v2 |
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| Genomics (web) |
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label | Search |
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url | https://portal.gdc.cancer.gov/projects/TCGA-LUAD |
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Images for 5 new subjects added. Version 2: Updated 2016/01/05Data Type | Download all or Query/Filter |
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Images (DICOM, 9.4GB) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/TCIA_TCGA-LUAD_09-16-2015.tcia?version=1&modificationDate=1534786964429&api=v2 |
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(Download requires the NBIA Data Retriever) | Clinical Data (TXT) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/TCGA-LUAD%20Clinical%20Data%201516.zip?version=1&modificationDate=1452103104183&api=v2 |
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| Genomics (web) |
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label | Search |
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url | https://portal.gdc.cancer.gov/projects/TCGA-LUAD |
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Extracted latest release of clinical data (TXT) from the GDC Data Portal. Version 1: Updated 2014/03/28Data Type | Download all or Query/Filter |
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Images (DICOM, 9.4GB) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/TCIA_TCGA-LUAD_09-16-2015.tcia?version=1&modificationDate=1534786964429&api=v2 |
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(Download requires the NBIA Data Retriever) | Clinical Data (TXT) |
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url | https://wiki.cancerimagingarchive.net/download/attachments/6881474/TCGA-LUAD%20Clinical%20Data.zip?version=1&modificationDate=1415388381629&api=v2 |
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| Genomics (web) |
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label | Search |
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url | https://portal.gdc.cancer.gov/projects/TCGA-LUAD |
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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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