Codeset genes expression analysis was used to generate a pairwise distance matrix. Additionally, MB cell lines previously assigned to the SHH subgroup: DAOY, UW228, ONS-76 [9 (link), 18 (link), 29 (link), 30 (link)] and the UW402 and UW473 (no subgroup information) were included in the analysis.
For molecular subgroup assignment, unsupervised hierarchical clustering was performed by Pearson distance correlation followed by an average-linkage algorithm. Delta Ct values were used during analysis and a Heatmap was generated using the Expression Suite® software (Life Technologies). A total of 763 MB samples from the study of Cavalli and colleagues [1 (link)] (GSE85217) in the R environment were analyzed for algorithm validation and heatmap comparison.
For molecular subgroup assignment, unsupervised hierarchical clustering was performed by Pearson distance correlation followed by an average-linkage algorithm. Delta Ct values were used during analysis and a Heatmap was generated using the Expression Suite® software (Life Technologies). A total of 763 MB samples from the study of Cavalli and colleagues [1 (link)] (GSE85217) in the R environment were analyzed for algorithm validation and heatmap comparison.
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