Figure EV3. Top 50 cell type‐specifically enriched proteins in the secretome resource.

1. Heat map of the top 50 differentially secreted proteins (Bonferroni's P.adj < 0.05 using the R package Limma (Ritchie et al, 2015)) across the four cell types from hierarchical clustering. For the missing protein quantification data, an imputation approach was undertaken using data missing at random within a left‐shifted Gaussian distribution by 1.8 standard deviation. The rows represent the differentially secreted proteins, and the columns represent the cell types with their replicates. The colors represent log‐scaled protein levels with blue indicating the lowest, white indicating intermediate, and red indicating the highest protein levels.
2. Functional annotation clustering with DAVID 6.8 (da Huang et al, 2009a; da Huang et al, 2009b) for gene ontology term biological process (FAT) of the cell type‐specific secretome proteins (Table EV4). All proteins detected in the hiSPECS brain secretome study have been chosen as the background. The dot sizes indicate the enrichment score.