StackData: Sample Stack Data

In Sstack: Bootstrap Stacking of Random Forest Models for Heterogeneous Data

Description

A demo dataset containing Gene Expression (GE), Reverse Phase Protein Array (RPPA) and drug sensitivity measure (AUC) for cancer cell lines that have been tested for the drug 17-AAG. Used to demonstrate the benefits of stacking by building an integrated model that will more effectively predict the AUC values given both GE and RPPA data.

Usage

StackData

Format

A list of 3 variables containing Gene Expression (GE), Reverse Phase Protein Array (RPPA) and drug sensitivity measure (AUC):

GE

Gene Expression (GE) data corresponding to cell lines tested by the drug 17-AAG taken from the Cancer Cell Line Encyclopedia. Relieff has been run to select the top 150 genes.

RPPA

Reverse Phase Protein Array (RPPA) data corresponding to cell lines tested by the drug 17-AAG taken from the MD Anderson Cell Lines Project. Relieff has been run to select the top 150 proteins.

AUC

Area under the Dose-Responce Curve (AUC) corresponding to the drug 17-AAG applied to each cell line. Taken from the Cancer Cell Line Encyclopedia.

Source

http://bioinformatics.mdanderson.org/main/MCLP:Overview https://portals.broadinstitute.org/ccle

References

Barretina,J. and et al. (2012) The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature, 483 (7391), 603<e2><80><93>607. Li, J. and et al. (2016) Characterization of Human Cancer Cell Lines by Reverse-Phase Protein Arrays. Cancer Cell (In Press).

Sstack documentation built on May 2, 2019, 5:39 a.m.