Example TENET MultiAssayExperiment object

A MultiAssayExperiment dataset created using a modified version of the TCGADownloader function from the TENET R package utilizing TCGAbiolinks package functionality. This object contains two SummarizedExperiment objects, expression and methylation, with expression data for 11,637 genes annotated to the GENCODE v36 dataset, including all 1,637 identified human TF genes, and DNA methylation data for 20,000 probes from the Illumina HM450 methylation array. The data are aligned to the human hg38 genome. Expression and methylation values were matched from 200 tumor and 42 adjacent normal tissue samples subset from the TCGA BRCA dataset. Additionally, results from running the TENET step 1-6 functions on these samples are included in the metadata of this MultiAssayExperiment object. Clinical data for these samples are included in the colData of the MultiAssayExperiment object. This dataset is intended to demonstrate TENET functions. Note: Because this dataset is a small subset of the overall BRCA dataset, results generated by TENET from this dataset differ from those presented for the BRCA dataset at large in TENET publications. This version of the dataset corresponds to version 1.1.1 of the TENET.ExperimentHub package.