cerv_asurat: Single-cell RNA-seq data of human cervix cancer cells

In johannesnicolaus/ASURAT_source: Assisting Interpretable Classifications in Single-cell Transcriptomics

Description

This dataset includes small cell neuroendocrine carcinoma, adenocarcinoma, and their combined phenotypes. Quality control was performed to remove cell outliers.

Usage

cerv_asurat

Format

An R list consisting of the following items:

mat_expression

a numeric matrix with 1012 rows and 515 columns, of which the row and column names, and entries stand for gene symbols, cell barcodes, and raw read counts, respectively.

gene_symbol

a one-dimensional vector with 1012 elements of gene symbols, corresponding to the rows of mat_expression.

gene_entrez

a one-dimensional vector with 1012 elements of Entrez gene IDs, corresponding to the rows of mat_expression.

sample_identity

a one-dimensional vector with 515 elements of cell barcodes, corresponding to the columns of mat_expression.

Details

The original data was produced by Nx1-seq using unique molecular identifiers (UMIs) from cancer tissue originated spheroids (CTOSs) isolated from cervix cancer patients, followed by in-vitro culture under hypoxic conditions for seven days. The CTOS line, cerv21, was introduced in Kubota et al., BBRC 524, 398-404 (2020). The scRNA-seq data were published in DDBJ under the following accession numbers: DRA007915; DRX155817 and DRX155818.

johannesnicolaus/ASURAT_source documentation built on Dec. 21, 2021, 2:11 a.m.