Extended Data Fig. 1: Visualization and benchmarking of intra-GSC clustering. | Nature Cancer

Extended Data Fig. 1: Visualization and benchmarking of intra-GSC clustering.

From: Gradient of Developmental and Injury Response transcriptional states defines functional vulnerabilities underpinning glioblastoma heterogeneity

Extended Data Fig. 1

a, t-SNE representation of intra-GSC heterogeneity across 29 patient-derived GSCs. Cells are colored by transcriptional cluster. Samples ordered by number of clusters. b, Comparison of cluster number (top), marker genes per cluster (middle) and average silhouette width per cluster (bottom) between our original GSC smart local moving (SLM) clustering algorithm (blue), Louvain (yellow), Louvain with multilevel refinement (green), k-means (salmon) and spectral (pink). across 29 GSCs. The number of data points in the boxplots (middle, bottom) corresponds to the number of clusters in the matched histogram (top). Box plots represent the median, first and third quartiles of the distribution and whiskers represent either 1.5-times interquartile range or most extreme value.

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