10X Visium - Human Lung Cancer

Gene expression library of Human Lung Cancer (CytAssist FFPE) using the Human Whole Transcriptome Probe Set

tenx_visium

Info

tenx_visium/visium/human_lung_cancer
10x Genomics (2023)
270.93 MiB
23-09-2024
6195 cells × 18033 genes

Used in

Description

10x Genomics obtained FFPE human lung cancer tissue from Avaden Biosciences. The tissue was sectioned as described in the Visium CytAssist Spatial Gene Expression for FFPE Tissue Preparation Guide (CG000518). Tissue section of 5 µm was placed on a standard glass slide, then stained following the Deparaffinization, H&E Staining, Imaging & Decrosslinking Demonstrated Protocol (CG000520). The glass slide with tissue section was processed via Visium CytAssist instrument to transfer analytes to a Visium CytAssist Spatial Gene Expression Slide v2, with 11 mm capture areas following the Visium CytAssist Spatial Gene Expression Reagent Kits User Guide (CG000495).

Preview

dataset is an AnnData object with n_obs × n_vars = 6195 × 18033 with slots:

Reference

Name Description Type Data type Size
var
feature_id Unique identifier for the feature, usually a ENSEMBL gene id. vector object 18033
feature_name A human-readable name for the feature, usually a gene symbol. vector object 18033
layers
counts Raw counts sparsematrix float32 6195 × 18033
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. 2023. “Human Lung Cancer, 11 Mm Capture Area (FFPE).” https://www.10xgenomics.com/datasets/human-lung-cancer-11-mm-capture-area-ffpe-2-standard.