10X Visium - Human Breast Cancer 2

Gene expression library of Human Breast Cancer (Visium FFPE) using the Human Whole Transcriptome Probe Set

tenx_visium

Info

tenx_visium/visium/human_breast_cancer_2
10x Genomics (2021)
55.79 MiB
23-09-2024
2518 cells × 13311 genes

Used in

Description

10x Genomics obtained FFPE human breast tissue from BioIVT Asterand Human Tissue Specimens. The tissue was annotated with Ductal Carcinoma In Situ, Invasive Carcinoma. The tissue was sectioned as described in Visium Spatial Gene Expression for FFPE - Tissue Preparation Guide Demonstrated Protocol (CG000408). Tissue sections of 5 µm were placed on Visium Gene Expression slides, then stained following Deparaffinization, H&E Staining, Imaging & Decrosslinking Demonstrated Protocol (CG000409).

Preview

dataset is an AnnData object with n_obs × n_vars = 2518 × 13311 with slots:

Reference

Name Description Type Data type Size
var
feature_id Unique identifier for the feature, usually a ENSEMBL gene id. vector object 13311
feature_name A human-readable name for the feature, usually a gene symbol. vector object 13311
layers
counts Raw counts sparsematrix float32 2518 × 13311
uns
dataset_description Long description of the dataset. atomic str 1
dataset_id A unique identifier for the dataset. This is different from the obs.dataset_id field, which is the identifier for the dataset from which the cell data is derived. atomic str 1
dataset_name A human-readable name for the dataset. atomic str 1
dataset_organism The organism of the sample in the dataset. atomic str 1
dataset_reference Bibtex reference of the paper in which the dataset was published. atomic str 1
dataset_summary Short description of the dataset. atomic str 1
dataset_url Link to the original source of the dataset. atomic str 1

References

10x Genomics. 2021. “Human Breast Cancer: Ductal Carcinoma in Situ, Invasive Carcinoma (FFPE).” https://www.10xgenomics.com/datasets/human-breast-cancer-ductal-carcinoma-in-situ-invasive-carcinoma-ffpe-1-standard-1-3-0.