This is the analysis overview for Firehose run "24 October 2012".
Note: These results are offered to the community as an additional reference point, enabling a wide range of cancer biologists, clinical investigators, and genome and computational scientists to easily incorporate TCGA into the backdrop of ongoing research. While every effort is made to ensure that Firehose input data and algorithms are of the highest possible quality, these analyses have not been reviewed by domain experts.
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Sequence and Copy Number Analyses
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Mutation Analysis (MutSig vS2N)
View Report | -
Clustering Analyses
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Clustering of miR expression: consensus NMF
View Report | We filtered the data to 150 most variable miRs. Consensus NMF clustering of 570 samples and 150 miRs identified 3 subtypes with the stability of the clustering increasing for k = 2 to k = 8 and the average silhouette width calculation for selecting the robust clusters. -
Clustering of miR expression: consensus hierarchical
View Report | We filtered the data to 150 most variable miRs. Consensus average linkage hierarchical clustering of 570 samples and 150 miRs identified 3 subtypes with the stability of the clustering increasing for k = 2 to k = 8 and the average silhouette width calculation for selecting the robust clusters. -
Correlation Analyses
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Correlation between mRNA expression and clinical features
View Report | Testing the association between 17814 genes and 12 clinical features across 1569 samples, statistically thresholded by Q value < 0.05, 12 clinical features related to at least one genes. -
Correlation between miR expression and clinical features
View Report | Testing the association between 817 miRs and 7 clinical features across 562 samples, statistically thresholded by Q value < 0.05, 3 clinical features related to at least one miRs.
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Run Prefix = analyses__2012_10_24
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Summary Report Date = Fri Nov 16 16:15:10 2012
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Protection = FALSE