Clustering of mRNAseq gene expression: consensus NMF
Liver Hepatocellular Carcinoma (Primary solid tumor)
15 January 2014  |  analyses__2014_01_15
Maintainer Information
Citation Information
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Cite as Broad Institute TCGA Genome Data Analysis Center (2014): Clustering of mRNAseq gene expression: consensus NMF. Broad Institute of MIT and Harvard. doi:10.7908/C1VH5M8X
- Overview
+ Introduction
- Summary

The most robust consensus NMF clustering of 147 samples using the 1500 most variable genes was identified for k = 9 clusters. We computed the clustering for k = 2 to k = 8 and used the cophenetic correlation coefficient to determine the best solution.

- Results
+ Gene expression patterns of molecular subtypes
+ Consensus and correlation matrix
+ Silhouette widths
+ Samples assignment with silhouette width
+ Marker genes of each subtype
+ Methods & Data