Figure 4.

Altered proteomes of BTIC-18 3D versus 2D cell culture medium. (A) Volcano plot showing differentially abundant proteins from 3D versus 2D cell culture medium. Black line represents significant cut offs (t-test p-value multiple testing corrected < 0.05; -2 > fold change 3D/2D < 2). All experiments were conducted in 6 time points. Proteins highlighted in red were significantly higher concentrated in 3D cell culture medium. Proteins highlighted in green were significantly higher concentrated in 2D cell culture medium. (B, C) Interaction analysis of up- and downregulated proteins in 3D using STRING database (string-db.org); The line color indicates the type of interaction evidence, with purple and light blue lines denoting known, experimentally validated or database-derived interactions and other colors defining predicted interactions. The line thickness indicates the strength of the data support. (D) Significant terms of the Reactome overrepresentation analysis of increased and (E) decreased proteins in 3D media.