cytof-data {RPointCloud}

CyTOF Data

Description

This data set contains 18 columns of protein expression values measured in 214 early monocyte cells using mass cytometry (CyTOF).

Usage

data(cytof)

Format

Note that there are three distinct objects included in the data set: AML10.node287, AML10,node287.rips, and Arip.

AML10.node287

A numerical data matrix with 214 rows (single cells) amd 18 columns (antibody-protein markers). Values were obtained using mass cytometry applied to a sample collected from a patient with acute myeloid leukemia (AML).

AML10.node287.rips

This object is a "Rips diagram". It was produced by running the ripsDiag function from the TDA R package on the AML10.node287 data matrix.

Arip

This object is a "Rips diagram". It was produced by running the ripsDiag function from the TDA R package on the Euclidean distance matrix between the single cells.

Author(s)

Kevin R. Coombes [e-mail], RB McGee [e-mail], Jake Reed [e-mail]

Source

Data were collected by Dr. Greg Behbehani while working in the laboratory of Dr. Garry Nolan at Stanford University. This data set is a tiny subset of the full data set, which was described previously in the paper by Behbehani et al.

References

Behbehani GK, Samusik N, Bjornson ZB, Fantl WJ, Medeiros BC, Nolan GP. Mass Cytometric Functional Profiling of Acute Myeloid Leukemia Defines Cell-Cycle and Immunophenotypic Properties That Correlate with Known Responses to Therapy. Cancer Discov. 2015 Sep;5(9):988-1003. doi: 10.1158/2159-8290.CD-15-0298.