Localtab |
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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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Tissue Slide Images ( | TIFF IM3, 896 appboxcoms/norlxmond7s7nwtexkb9a1arpdsss2ww Tcia button generator |
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label | Search |
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url | aspera/faspex?context=eyJyZXNvdXJjZSI6InBhY2thZ2VzIiwidHlwZSI6ImV4dGVybmFsX2Rvd25sb2FkX3BhY2thZ2UiLCJpZCI6IjUwNyIsInBhc3Njb2RlIjoiODA1YzM5M2NiMWMyNDZhMzFjZDIwM2JjYWY2YmUyYzI1MzE1MjZjMyIsInBhY2thZ2VfaWQiOiI1MDciLCJlbWFpbCI6ImhlbHBAY2FuY2VyaW1hZ2luZ2FyY2hpdmUubmV0In0= |
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(Download and apply the IBM-Aspera-Connect plugin to your browser to retrieve this faspex package) | |
Click the Versions tab for more info about data releases. Additional Resources for this Dataset- The source code for stain translation is available at https://
pathologycancerimagingarchive.netpathdata/select.html?filter=%7B%22study%22%3A%7B%22match%22%3A%22mIF_vs_mIHC%22%7D%2C%22subject_id%22%3A%7B%7D%7DClick the Versions tab for more info about data releases.Please contact help@cancerimagingarchive.net with any questions regarding usage. |
Localtab |
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title | Detailed Description |
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| Detailed Description
| Pathology Image Statistics |
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Modalities | Pathology | Number of Subjects | 8 | Number of Images | 8643216 | Images Size (GB) | 81.96 |
Images were taken at 20x magnification
Version 2 of dataset replaced title, summary, acknowledgements, and publication citation with new information. These entries for version 1 dataset may be accessed here. |
Localtab |
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title | Citations & Data Usage Policy |
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| Citations & Data Usage Policytcia-limited-license-4-internationalpolicy |
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Info |
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| SlebosGhahremani, RP., Marino, J. C, Hernandez-Prera, J., de la Iglesia, J. V., Aden-Buie, G. A., Chaudhary, R., Hernandez-Prera, J. CSlebos, R. J., Chung, C. H., & GerkeNadeem, T. AS. (2020). Comparison of mIF versus mIHC for immune markers in head and neck carcinoma [Data set2023). AI-ready re-stained and co-registered multiplex dataset for head-and-neck carcinoma (HNSCC-mIF-mIHC-comparison) (Version 2) [dataset]. The Cancer Imaging Archive. https://doi.org/10.7937/TCIA.2020.T90F-WB82 |
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title | Acknowledgement | Publication Citation |
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| Ghahremani, P., Marino, J., Hernandez-Prera, J., de la Iglesia, J. V., Slebos, R. J., Chung, C. H., & Nadeem, S. (2023). An AI-Ready Multiplex Staining Dataset for Reproducible and Accurate Characterization of Tumor Immune Microenvironment. In: H. Greenspan et al. (eds.): Medical Image Computing and Computer Assisted Intervention – MICCAI 2023. MICCAI 2023. Lecture Notes in Computer Science, vol 14225, pp. 1–10, 2023. Springer, Cham. https://doi.org/10.1007/978-3-031-43987-2_68This work has been supported by the James and Esther King Biomedical Research Grant (7JK02) and Moffitt Merit Society Award to C. H. Chung. It is also supported in part by the Moffitt’s Total Cancer Care Initiative, Collaborative Data Services, Biostatistics and Bioinformatics, and Tissue Core Facilities at the H. Lee Moffitt Cancer Center & Research Institute, an NCI-designated Comprehensive Cancer Center (P30-CA076292). |
Info |
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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. 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. DOI: 10.1007/s10278-013-9622-7 |
Other Publications Using This DataTCIA maintains a list of publications which leverage TCIA data. If you have a manuscript you'd like to add please contact the TCIA Helpdesk. |
Localtab |
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| Version 2 (Current): Updated 2023/08/31Data Type | Download all or Query/Filter | License |
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Tissue Slide Images (PNG, 1.01 GB) |
Tcia button generator |
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url | https://faspex.cancerimagingarchive.net/aspera/faspex?context=eyJyZXNvdXJjZSI6InBhY2thZ2VzIiwidHlwZSI6ImV4dGVybmFsX2Rvd25sb2FkX3BhY2thZ2UiLCJpZCI6IjUwNyIsInBhc3Njb2RlIjoiODA1YzM5M2NiMWMyNDZhMzFjZDIwM2JjYWY2YmUyYzI1MzE1MjZjMyIsInBhY2thZ2VfaWQiOiI1MDciLCJlbWFpbCI6ImhlbHBAY2FuY2VyaW1hZ2luZ2FyY2hpdmUubmV0In0= |
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(Download and apply the IBM-Aspera-Connect plugin to your browser to retrieve this faspex package) | |
Version 2 dataset modifications: (1) 35 channels by human error in conversion in the version 1 (Current)dataset were corrected. (2) Non-standard im3 format, that is not supported by most platforms/viewers, images were replaced with png format. (3) A lot of images in the multiplex IHC folder were not from the same ROI as the hematoxylin/AEC. Names/labels for all the files were corrected to address this. (4) Grayscale images which do not allow to analyze the original AEC/Hematoxylin colored images, so original-colored images were added. (5) Intensity concordance study was difficult with the old version since the images across AEC/mpIF were not perfectly co-registered. Images are now perfectly co-registered to address this. (6) The original focus was not on the AI-ready datasets. In this version, we release an AI-ready dataset that should work out-of-the-box for multiple tasks using the SOTA deep learning algorithms. Version 1: Updated 2020/06/04Data Type | Download all or Query/Filter |
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Tissue Slide Images (TIFF, IM3, 8.96 GB) | | appboxcoms/norlxmond7s7nwtexkb9a1arpdsss2wwaspera/faspex?context=eyJyZXNvdXJjZSI6InBhY2thZ2VzIiwidHlwZSI6ImV4dGVybmFsX2Rvd25sb2FkX3BhY2thZ2UiLCJpZCI6IjQ3MyIsInBhc3Njb2RlIjoiNDFkZjViNzE0ZjA4MzNmMDMxMTRiZWY1MGZjODhjZTRiNDkwNmI0MiIsInBhY2thZ2VfaWQiOiI0NzMiLCJlbWFpbCI6ImhlbHBAY2FuY2VyaW1hZ2luZ2FyY2hpdmUubmV0In0= |
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| pathologypathdb.cancerimagingarchive.net/ |
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| pathdata/select.html?filter=%7B%22study%22%3A%7B%22match%22%3A%22mIF_vs_mIHC%22%7D%2C%22subject_id%22%3A%7B%7D%7Dimagesearch?f[0]=collection:hnscc_mif_mihc_comparison |
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(Download and apply the IBM-Aspera-Connect plugin to your browser to retrieve this faspex package) |
Version 2 of dataset replaced title, summary, acknowledgements, and publication citation with new information. These entries for version 1 dataset may be accessed here. |
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