Published December 6, 2024
| Version v1
Dataset
Open
QUICHE reveals structural definitions of anti-tumor responses in triple negative breast cancer
Description
Contains preprocessed single-cell imaging data and metadata for Spain, Stanford, and NeoTRIP TNBC cohorts. `.h5ad` objects can be accessed using the read_h5ad function in anndata. For access to the raw imaging data and cell segmentation masks, see the BioStudies imaging repository under the accession S-BIAD1507 at https://www.ebi.ac.uk/biostudies/bioimages/studies/S-BIAD1507.
- Spain TNBC cohort (spain_preprocessed.h5ad) contains preprocessed MIBI-TOF imaging data of 314 primary TNBC tumors from five medical centers collected from CNIO. De-identified patient-level metadata can be found in `adata.obs`.
- Stanford TNBC cohort (stanford_preprocessed.h5ad) contains preprocessed MIBI-TOF imaging data of 142 primary TNBC tumors collected from the Stanford hospital. De-identified patient-level metadata can be found in `adata.obs`.
- NeoTRIP TNBC cohort from Ref. (https://doi.org/10.1038/s41586-023-06498-3) (nt_preprocessed.h5ad) was originally downloaded from the Zenodo data repository (https://doi.org/10.5281/zenodo.7990870) and contains 119 baseline samples profiled with imaging mass cytometry. De-identified patient-level metadata can be found in `adata.obs`.
Files
Files
(2.3 GB)
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md5:4f54dbf94e8347b2642f8272e52cda5a
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216.1 MB | Download |
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md5:f200611314c343aba1b054ba21075dd0
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1.3 GB | Download |
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md5:6400951955a5538250646b38d759c36f
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791.3 MB | Download |