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see e.g. https://www.cbioportal.org/patient/pathologyReport?studyId=ucec_tcga_pub&caseId=TCGA-BK-A0CC
inodb updated
5 months ago
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@ritikakundra do you have a list of TCGA published studies that have not been curated? Could you add them here?
https://cancergenome.nih.gov/publications
| TCGA Study | PMID | c…
jjgao updated
3 years ago
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Thank you for your wonderful work!
I encountered an issue while running mmp_visualization.ipynb. Although I successfully ran MMP and obtained the results, the notebook requires reading an h5_feats_…
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Most of TCGA-CRC diagnostic slides are x40 magnification (MPP=0.25), but some are x20 magnification (MPP=0.5). Be careful when tessellate WSI into patches.
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> At present, TCGA Pan Cancer Datasets supports Cancer Biology for only four Cancer types. These four cancer type (TCGA datasets) are Breast Cancer (BRCA), Lung Cancer (LUAD), Colon Cancer (COAD) and …
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One approach is to process the raw data into summary statistics of interest. For instance, define a list of disease types and pool all the studies for that particular disease. Then calculate the mutat…
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I work with the ESCA project, looking at Esophageal adenocarcinoma. However, TCGA has placed squamous cell alongside Adenocarcinoma, the diseases are significantly different leading to the immensely p…
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i am using this issue to provide info on the data i use when benchmarking wsinfer in qupath.
image: TCGA-3C-AALI-01Z-00-DX1.F6E9A5DF-D8FB-45CF-B4BD-C6B76294C291.svs ([link to image for download](ht…
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Hi,
I installed prov-gigapath on Linux and I can run the examples you've shared.
Now I would like to use it to automatically classify tile/slide content, like: does this tile contain cancerous cel? …
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Thank you for this great work!
May I ask where to find the corresponding label for IDH1 mutation prediction task (TCGA & EBRAINS)?
Thanks!