SCE.colon.Lee: Colorectal cancer single-cell RNA-seq dataset from Lee, Hong,...

In diegommcc/digitalDLSorteRdata: Data Package for the digitalDLSorteR Software R Package

Colorectal cancer single-cell RNA-seq dataset from Lee, Hong, Etlioglu Cho et al., 2020

Description

SingleCellExperiment object containing single-cell RNA-seq data from colorectal cancer samples from the Lee, Hong, Etlioglu Cho et al., 2020 study (GSE132465, GSE132257 and GSE144735).The raw count matrix only contains information for the 2,000 genes selected to build the DDLS.colon.lee pre-trained model from the digitalDLSorteRmodels R package.

Usage

SCE.colon.Lee

Format

An object of class SingleCellExperiment with 2000 rows and 106364 columns.

Source

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE75688 https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE132257 https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE144735

References

Lee HO, Hong Y, Etlioglu HE, Cho YB, Pomella V, Van den Bosch B, Vanhecke J, Verbandt S, Hong H, Min JW, Kim N, Eum HH, Qian J, Boeckx B, Lambrechts D, Tsantoulis P, De Hertogh G, Chung W, Lee T, An M, Shin HT, Joung JG, Jung MH, Ko G, Wirapati P, Kim SH, Kim HC, Yun SH, Tan IBH, Ranjan B, Lee WY, Kim TY, Choi JK, Kim YJ, Prabhakar S, Tejpar S, Park WY. Lineage-dependent gene expression programs influence the immune landscape of colorectal cancer. Nat Genet. 2020 Jun;52(6):594-603. doi: \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1038/s41588-020-0636-z")}.

diegommcc/digitalDLSorteRdata documentation built on April 6, 2024, 3:01 a.m.