Dataset Open Access

A single-cell and spatially resolved atlas of human breast cancers | spatial transcriptomics data

Sunny Z Wu; Alexander Swarbrick

This repository contains spatial transcriptomics data related to the Wu et al. 2021 study "A single-cell and spatially resolved atlas of human breast cancers". Processed count matrices, brightfield HE-images (plain and annotated) and meta-data (containing clinical information and spot pathological details) for 6 primary breast cancers profiled using the Visium assay (10X Genomics). If you use this dataset in your research, please consider citing the above study.

The content of the files are:
raw_count_matrices.tar.gz - spaceranger processed raw count matrices.

spatial.tar.gz - spaceranger processed spatial files (images, scalefactors, aligned fiducials, position lists)

filtered_count_matrices.tar.gz - filtered count matrices.

metadata.tar.gz - metadata for tissues and spots of filtered count matrices, including clinical subtype and pathological annotation of each spot.

images.pdf - pdf detailing the H&E and annotation images.

Files (920.8 MB)
Name Size
filtered_count_matrices.tar.gz
md5:ea1220f0606c4d4e9307468fb2d5427a
155.7 MB Download
images.pdf
md5:7a44782b0c376e5b4cb8bb1127821e6f
457.7 MB Download
metadata.tar.gz
md5:1d0b34ead70635c094ac74ac58a88d68
217.5 kB Download
raw_count_matrices.tar.gz
md5:f332ba383872dd74a27db67fcbfcd900
252.9 MB Download
spatial.tar.gz
md5:29b02ae433d459d19dc52b75a529e8e9
54.3 MB Download
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