Clustering of mRNAseq gene expression: consensus hierarchical
Lung Squamous Cell Carcinoma (Primary solid tumor)
17 October 2014
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analyses__2014_10_17
Maintainer Information
Citation Information
Maintained by Hailei Zhang
(Broad Institute)
Cite as
Broad Institute TCGA Genome Data Analysis Center
(2014):
Clustering of mRNAseq gene expression: consensus hierarchical.
Broad Institute of MIT and Harvard.
doi:10.7908/C1C53JRT
Overview
Introduction
Summary
Median absolute deviation (MAD) was used to select 1500 most variable genes. Consensus ward linkage hierarchical clustering of 501 samples and 1500 genes identified 3 subtypes with the stability of the clustering increasing for k = 2 to k = 10.
Results
Gene expression patterns of molecular subtypes
Silhouette widths, Cophenetic Correlation Coefficients and Consensus matrix
Samples assignment with silhouette width
Marker genes of each subtype
Methods & Data
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Broad Institute TCGA GDAC as part of the TCGA Research Network.
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