Localtab |
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title | Data Access |
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| Data Access Choosing the Download option will provide you with a file to launch the TCIA Download Manager to download the entire collection. If you want to browse or filter the data to select only specific scans/studies please use the Search optionC lick the Download button to save a ".tcia" manifest file to your computer, which you must open with the NBIA Data Retriever . Click the Search button to open our Data Portal, where you can browse the data collection and/or download a subset of its contents.
Data Type | Download all or Query/Filter |
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Images (DICOM, 130.4GB) | | Summary ISH, RNA, gene expression and clinical data | | Detailed clinical, genomic, and expression array data | |
Click the Versions tab for more info about data releases. 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: |
Localtab |
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title | Detailed Description |
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| Detailed Description
MRI, CT PatientsParticipants | 39 | Number of Studies | 390 | Number of Series | 5223 | Number of Images | 846743 | Image Size (GB) | 130.4 |
Supporting Documentation Info |
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| | In addition to the DICOM images in TCIA there are two additional databases linked together by de-identified tumor specimen numbers to facilitate comparisons across data modalities: - The Ivy Glioblastoma Atlas Project web site includes the following data:
- ISH: Image data at cellular resolution of in situ hybridization (ISH) tissue sections and adjacent hematoxylin and eosin (H&E)-stained sections annotated for anatomic structures
- Anatomic Structures ISH Survey: Primary screen of 8 tumors with probes for 343 genes enriched in glioblastoma.
- Anatomic Structures ISH for Enriched Genes: Subsequent screen of 29 tumors with probes for 37 genes enriched in glioblastoma structures identified in Anatomic Structures RNA-Seq Study (see below).
- Cancer Stem Cells ISH Survey: Primary screen of 16 tumors with probes for 55 genes enriched in putative cancer stem cells, resulting in a 20 probe reference set, which was then used in an extensive screen of 42 tumors.
- Cancer Stem Cells ISH for Enriched Genes: Subsequent screen of 37 tumors with probes for 76 genes enriched in clusters of putative cancer stem cells identified in the Cancer Stem Cells RNA-Seq Study (see below).
- RNA-Seq: RNA sequencing data for anatomic structures identified in the Anatomic Structures ISH Survey and putative cancer stem cell clusters isolated by laser microdissection
- Anatomic Structures RNA-Seq: Screen of 5 structures (Leading Edge, Infiltrating Tumor, Cellular Tumor, Microvascular Proliferation, and Pseudopalisading Cells Around Necrosis) identified by H&E staining. A total of 122 RNA samples were generated from 10 tumors.
- Cancer Stem Cells RNA-Seq: Screen of 35 clusters of putative cancer stem cells identified by ISH with a 17 reference probe subset (validated in the Cancer Stem Cells ISH Survey). A total of 148 RNA samples were generated from 34 tumors.
- Specimen Metadata: De-identified clinical data for each patient and tumor.
- The Ivy GAP Clinical and Genomic Database contains detailed clinical information including pathology images, genomic data, and prospectively collected outcomes data. This site requires separate registration.
Localtab |
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title | Citations & Data Usage Policy |
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| Citations & Data Usage Policy This collection is freely available to browse, download, and use for commercial, scientific and educational purposes as outlined in the Creative Commons Attribution 3.0 Unported License. See TCIA's Data Usage Policies and Restrictions for additional details. Questions may be directed to help@cancerimagingarchive.net. Please be sure to include the following citations in your work if you use this data set: Public collection license |
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title | Ivy GAP Data Citation |
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| Nameeta Shah, Ph.DN., Xu Feng, PhX.D., Michael Lankerovich, Ph.DM., Ralph B. Puchalski, PhR. DB., Bart & Keogh, M.D., Ph.D. B. (2016). Data from Ivy GAP [Data set]. The Cancer Imaging Archive. httphttps://dx.doi.org/10.7937/K9/TCIA.2016.XLwaN6nL XLWAN6NL |
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title | Publication Citation |
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| Coming Soon | Info |
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title | Publication Citation |
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| Puchalski RB, Shah N, Miller J, Dalley R, Nomura SR, Yoon J-G, Smith KA, Lankerovich M, Bertagnolli D, Bickley K, Boe AF, Brouner K, Butler S, Caldejon S, Chapin M, Datta S, Dee N, Desta T, Dolbeare T, Dotson N, Ebbert A, Feng D, Feng X, Fisher M, Gee G, Goldy J, Gourley L, Gregor BW, Gu G, Hejazinia N, Hohmann J, Hothi P, Howard R, Joines K, Kriedberg A, Kuan L, Lau C, Lee F, Lee H, Lemon T, Long F, Mastan N, Mott E, Murthy C, Ngo K, Olson E, Reding M, Riley Z, Rosen D, Sandman D, Shapovalova N, Slaughterbeck CR, Sodt A, Stockdale G, Szafer A, Wakeman W, Wohnoutka PE, White SJ, Marsh D, Rostomily RC, Ng L, Dang C, Jones A, Keogh B, Gittleman HR, Barnholtz-Sloan JS, Cimino PJ, Uppin MS, Keene CD, Farrokhi FR, Lathia JD, Berens ME, Iavarone A, Bernard A, Lein E, Phillips JW, Rostad SW, Cobbs C, Hawrylycz MJ, Foltz GD. (2018). An anatomic transcriptional atlas of human glioblastoma. Science, 360(6389), 660–663. https://doi.org/10.1126/science.aaf2666 |
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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, . Journal of Digital Imaging, Volume 26, Number (6, December, 2013, pp 1045-1057. (paper)), 1045–1057. https://doi.org/10.1007/s10278-013-9622-7 |
Other Publications Using This DataTCIA maintains a list of publications which that leverage our data. At this time, we are not aware of any publications based on this data. If you have a publication you'd like to add, please contact the TCIA Helpdesk. Altmetrics
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Localtab |
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| Version 1 (Current): Updated 2016/12/30
Data Type | Download all or Query/Filter |
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Images (DICOM, 130.4GB) | | |
Summary ISH, RNA, gene expression and clinical data | | Detailed clinical, genomic, and expression array data | |
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