curatedPCaDatasets_true: True et al. MAE-object
In Syksy/curatedPCaData: Curated Prostate Cancer Data

curatedPCaDatasets_true

R Documentation

True et al. MAE-object

Description

MultiAssayExperiment object containing gene expression (gex) and immune cell estimates from True et al.

Format

An MAE object spanning 32 men with prostate cancer

gex.logr: matrix with 3615 rows and 32 columns, of gene expression data
cibersort: matrix with 22 rows and 32 columns, of cibersort based deconvolution data
epic: matrix with 8 rows and 32 columns, of epic based deconvolution data
quantiseq: matrix with 11 rows and 32 columns, of quantiseq based deconvolution data
mcp: matrix with 7 rows and 32 columns, of mcp-counter based deconvolution data
scores: matrix with 2 rows and 32 columns, of risk scores and AR scores
estimate: data.frame with 4 rows and 32 columns, of cell types based on ESTIMATE method

Details

The expression data for this dataset was produced by an older two colour chip that provides the relative expression levels for between tumor and normal. Due to the chip type, there was a lack of gene overlap with some of the downstream methods, thus some downstream methods are missing.