curatedPCaDatasets_friedrich: Friedrich et al. MAE-object
In Syksy/curatedPCaData: Curated Prostate Cancer Data

curatedPCaDatasets_friedrich

R Documentation

Friedrich et al. MAE-object

Description

MultiAssayExperiment object containing gene expression (gex) and immune cell estimates for Friedrich et al.

Format

An MAE object spanning 255 men with prostate cancer

gex.logq: matrix with 23097 rows and 255 columns, for the log-quantile normalized gene expression data
cibersort: matrix with 22 rows and 255 columns, of cibersort based deconvolution data
xcell: matrix with 39 rows and 255 columns, of xcell based deconvolution data
epic: matrix with 8 rows and 255 columns, of epic based deconvolution data
quantiseq: matrix with 11 rows and 255 columns, of quantiseq based deconvolution data
estimate: data.frame with 4 rows and 255 columns, of cell types based on ESTIMATE method
scores: matrix with 4 rows and 255 columns, of risk scores and AR scores
mcp: matrix with 11 rows and 255 columns, of mcp-counter based deconvolution data

Details

The data comprises of 255 samples, with 164 primary tumors samples, 52 adjacent normal samples, and 39 benign prostate hyperplasia samples. This dataset includes in its totality the 164 samples analysed in Kreutz et al. 2020.