Fig. 2.

Molecular subtyping of GC lines and their corresponding tumor samples. (A) Forty-eight GC lines were analyzed by Affymetrix GeneChip Human Exon 1.0ST Arrays, followed by subtyping (indicated to the right of each bar) by applying a k-nearest neighbor classification in combination with bootstrapping. The variation in the fraction of times each cell line classified as Mesenchymal (MS, red bars), Neural (NL, green bars), Proneural (PN, magenta bars) or Classical (CL, blue bars) reflects the uncertainty of the assignment. The subtype assignment of each GC line is indicated to the right of each bar. * = sample that failed to be analyzed on the Exon Array, the assigned subtype is based on gene expression analyzed on Human Transcriptome Array (see Fig. 7B). (B) Comparison of the predicted subtypes of 22 GC lines and the corresponding tumor tissue based on gene expression analysis by NanoString Technology. The fraction of times each cell line or tissue sample was assigned to the Mesenchymal (MS, red bars), Neural (NL, green bars), Proneural (PN, purple bars) or Classical (CL, blue bars) subtype is depicted and the final assignment indicated to the right or left of the bars, respectively. See also Table S2.