Fig 1.
The tissue landscape of the gene expression profiles illustrated in a two-dimensional map.
(A) Projection of 1641 GTEx samples in a 2D-map: Each point represents a sample which is coloured according to the (sub)tissue label (45 in total). Samples that cluster outside the matching tissue subtype-cluster are circled in red. Sample clusters are illustrated by the 22 differentially coloured density maps. (B) the projection of 313 brain samples and their associated brain-tissue. (C) Comparison of brain samples clustered by the HC approach versus the t-SNE approach resulted in cophenetic correlation[6] of 0.68. An edge links the sample ID positions between the HC and t-SNE clustering. Edge colours are based on the brain tissue regions. Clusters are labelled if a particular brain region was significantly overrepresented in the cluster (hypergeometric test with P≤0.001).
Fig 2.
Cluster associations and comparison with the hierarchical clustering approach.
(A) Association of the clusters based on the t-SNE-map with the tissue types. A star indicates significant overrepresentation (P≤0.0001) of samples in a cluster with the respective tissue label. Red-coloured numbers depict samples outside the cluster that matches their tissue label. Coloured squares depict the percentage of samples that overlap. (B) Comparison of the t-SNE-map based clusters versus the HC approach[2]. A star indicates significant over-representation (P≤0.0001) of samples in a cluster of the t-SNE-map with samples in a cluster of the HC approach[2]. Coloured squares depict the percentage of samples that overlap.