Summarize CxG Information About a Dataset

Usage

training_cxg_dataset(dataset_id)

# S3 method for cxg_dataset
print(x, ...)

Arguments

dataset_id: character(1) dataset identifier, as returned by, e.g., datasets().
x: A cxg_dataset object resulting from a call to training_cxg_dataset().
...: Additional arguments (to print.cxg_dataset()); ignored.

Examples

dataset <- "de985818-285f-4f59-9dbd-d74968fddba3"
ds <- training_cxg_dataset(dataset)
ds
#> title: A single-cell atlas of the healthy breast tissues reveals
#>     clinically relevant clusters of breast epithelial cells
#> description: Single-cell RNA sequencing (scRNA-seq) is an evolving
#>     technology used to elucidate the cellular architecture of adult
#>     organs. Previous scRNA-seq on breast tissue utilized reduction
#>     mammoplasty samples, which are often histologically abnormal. We
#>     report a rapid tissue collection/processing protocol to perform
#>     scRNA-seq of breast biopsies of healthy women and identify 23
#>     breast epithelial cell clusters. Putative cell-of-origin signatures
#>     derived from these clusters are applied to analyze transcriptomes
#>     of ~3,000 breast cancers. Gene signatures derived from mature
#>     luminal cell clusters are enriched in ~68% of breast cancers,
#>     whereas a signature from a luminal progenitor cluster is enriched
#>     in ~20% of breast cancers. Overexpression of luminal progenitor
#>     cluster-derived signatures in HER2+, but not in other subtypes, is
#>     associated with unfavorable outcome. We identify TBX3 and PDK4 as
#>     genes co-expressed with estrogen receptor (ER) in the normal
#>     breasts, and their expression analyses in >550 breast cancers
#>     enable prognostically relevant subclassification of ER+ breast
#>     cancers.
#> authors: Bhat-Nakshatri, Poornima; Gao, Hongyu; Sheng, Liu; McGuire,
#>     Patrick C.; Xuei, Xiaoling; Wan, Jun; Liu, Yunlong; Althouse,
#>     Sandra K.; Colter, Austyn; Sandusky, George; Storniolo, Anna Maria;
#>     Nakshatri, Harikrishna
#> journal: Cell Reports Medicine
#> assays: 10x 3' v2; 10x 3' v3
#> organism: Homo sapiens
#> ethnicity: African American; Chinese; European