10X Visium - Human Prostate Cancer

Gene expression library of Human Prostate Cancer (Visium FFPE) with an IF image using the Human Whole Transcriptome Probe Set

tenx_visium

Info

tenx_visium/visium/human_prostate_cancer
10x Genomics (2022)
72.38 MiB
23-09-2024
3460 cells × 13565 genes

Used in

Description

10x Genomics obtained FFPE human prostate tissue from Indivumed Human Tissue Specimens. Original diagnosis with adenocarcinoma. The tissue was sectioned as described in Visium Spatial Gene Expression for FFPE Tissue Preparation Guide Demonstrated Protocol (CG000408). Tissue sections of 10 µm were placed on Visium Gene Expression slides, then stained following Deparaffinization, Decrosslinking, Immunofluorescence Staining & Imaging Demonstrated Protocol (CG000410).

Preview

dataset is an AnnData object with n_obs × n_vars = 3460 × 13565 with slots:

Reference

Name Description Type Data type Size
var
feature_id Unique identifier for the feature, usually a ENSEMBL gene id. vector object 13565
feature_name A human-readable name for the feature, usually a gene symbol. vector object 13565
layers
counts Raw counts sparsematrix float32 3460 × 13565
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. 2022. “Human Prostate Cancer, Adjacent Normal Section with IF Staining (FFPE).” https://www.10xgenomics.com/datasets/human-prostate-cancer-adjacent-normal-section-with-if-staining-ffpe-1-standard.