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  • Dataset of Segmented Nuclei in Hematoxylin and Eosin Stained Histopathology Images (Pan-Cancer-Nuclei-Seg)

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Comment: updated citations and textfile from site about TCGA identifiers. No change to imaging.

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Localtab Group



Localtab
activetrue
titleData Access

Data Access

Data TypeDownload all or Query/FilterLicense
Tissue Slide Segmentation Results (1,200 GB)

Image Modified

Tcia cc by 3

List of histopathology slides (TXT, 348.5 KB )

Tcia cc by 3

Whole slide image-level quality control results (TXT, 151.4 KB)

Tcia cc by 3

Segmentation region checking results (TXT, 169.4 KB)

Tcia cc by 3


Click the Versions tab for more info about data releases.

Note:   Please contact help@cancerimagingarchive.net  with any questions regarding usage.

Additional Resources for this Dataset  

Collections Used in this Third Party Analysis
Below is a list of the Collections used in these analyses:

Additional visual segmentation data can be found on PathDB

Manual nucleus segmentation data of 1,365 patches: These 1,365 patches are randomly extracted from all 14 cancer types mentioned above. This data contains original H&E stained histopathology image patches, and instance-level segmentation masks. Additional information about




Localtab
titleDetailed Description

Detailed Description

Additional visual segmentation data can be found on PathDB

Manual nucleus segmentation data of 1,356 365 patches

These 1,356 365 patches are randomly extracted from all 14 cancer types mentioned above. This data contains original H&E stained histopathology image patches, and instance-level segmentation masks. Additional information about the process is in the readme.docx file and a crosswalk between patch filenames and TCGA case identifiers are within Pan-Cancer-Nuclei-Seg_1365patches_to_TCGA-ID_readme.txt file.




Localtab
titleCitations & Data Usage Policy

Citations & Data Usage Policy 

 

publictcia-collectionlimited-license-policy

Info
titleDataset Citation

Hou, L., Gupta, R., Van Arnam, J. S., Zhang, Y., Sivalenka, K., Samaras, D., Kurc, T., & Saltz, J. H. (2019). Dataset of Segmented Nuclei in Hematoxylin and Eosin Stained Histopathology Images of 10 Cancer Types [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/TCIA.2019.4A4DKP9U


Info
titlePublication Citation

Hou, L., Agarwal, A., Samaras, D., Kurc, T. M., Gupta, R. R., & Saltz, J. H. (2019, June). Robust Histopathology Image Analysis: To Label or to Synthesize? 2019 IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR). In Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition , pp. 8533-8542.   https://doi.org/10.1109/cvpr.2019.00873  Open Access Here



Info
titleTCIA Citation

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, 26(6), 1045–1057. https://doi.org/10.1007/s10278-013-9622-7





Other Publications Using This Data

TCIA maintains a list of publications that leverage TCIA data. If you have a manuscript you'd like to add please contact the TCIA Helpdesk.





Localtab
titleVersions

Version 1 (Current): 2020/02/08


Data TypeDownload all or Query/Filter
Tissue Slide Images (SVS, 1,200 GB)

List of histopathology slides (TXT, 348.5 KB )

WSI quality control results (TXT, 151.4 KB)

Segmentation region checking results (TXT, 169.4 KB)





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