MARS: Count data of MARS-Seq containing four different cell types.

In rikenbit/FUCHIKOMA: Revealing differentially expressed genes using nonlinear dimensionality reduction for single cell RNA-Seq data

Description

A data frame with 353 rows (genes) with following 228 columns (cells).

The data is downloaded form GEO (GSE54006) and genes having no expression are filted.

The data has four different cell types; B cells (B1-B48), Dendritic cells (DC1-DC89), Monocytes (Mono1-Mono46), and Natural Killer cells (NK1-NK45).

Usage

data(MARS)

Author(s)

Koki Tsuyuzaki, Haruka Ozaki, Mika Yoshimura, Itoshi Nikaido

Maintainer: Koki Tsuyuzaki <[e-mail]>

Source

https://www.sciencemag.org/content/343/6172/776?related-urls=yes&legid=sci;343/6172/776

http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE54006

References

Diego Adhemar Jaitin, Ephraim Kenigsberg, Hadas Keren-Shaul, Naama Elefant, Franziska Paul, Irina Zaretsky, Alexander Mildner, Nadav Cohen, Steffen Jung, Amos Tanay, Ido Amit (2014) Massively Parallel Single-Cell RNA-Seq for Marker-Free Decomposition of Tissues into Cell Types. Science, 343 (6172): 776-779

Examples

data(MARS)
data(label.MARS)
data(result.pca.MARS)
data(result.tsne.MARS)
data(result.dmap.MARS)
pairs(result.pca.MARS, col=label.MARS, main="MARS-Seq (PCA)", pch=16)
plot(result.tsne.MARS, col=label.MARS, main="MARS-Seq (t-SNE)", pch=16)
pairs(result.dmap.MARS, col=label.MARS, main="MARS-Seq (Diffusion Map)", pch=16)

rikenbit/FUCHIKOMA documentation built on May 27, 2019, 9:09 a.m.