Cursons2018_se: Combinatorial miRNAs in breast cancer EMT from Cursons et al....

In DavisLaboratory/emtdata: An ExperimentHub Package for data sets with an Epithelial to Mesenchymal Transition (EMT)

Description

Cursons et al. used the Human Mammary Epithelial Cells (HMLE) cell line dataset. A mesenchymal HMLE (mesHMLE) phenotype was induced following treatment with transforming growth factors (TGFb). The mesHMLE subline was then treated with mir200c to reinduce an epithelial phenotype. All mRNA RNA-seq was collected using the Illumina HiSeq 2500 with a paired end read length of 100bp.

Format

A SummarizedExperiment object, containing gene expression data of the Human Mammary Epithelial Cells (HMLE) cell line. The SummarizedExperiment::colData() function can be used to access the sample annotations.

Details

Data from this publication were downloaded from the European Nucleotide Archive (ENA) and processed into a SummarizedExperiment object. Sample annotations were modified from the original publication.

References

Cursons, J., Pillman, K. A., Scheer, K. G., Gregory, P. A., Foroutan, M., Hediyeh-Zadeh, S., ... & Davis, M. J. (2018). Combinatorial targeting by microRNAs co-ordinates post-transcriptional control of EMT. Cell systems, 7(1), 77-91.

Examples

library(ExperimentHub)
eh <- ExperimentHub()
emt_datasets <- query(eh, "emtdata")

DavisLaboratory/emtdata documentation built on Dec. 17, 2021, 4:09 p.m.