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)

Combinatorial miRNAs in breast cancer EMT from Cursons et al. (2018)

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 Nov. 24, 2024, 8:27 a.m.