“How different are 2D and 3D in vitro model for investigating the mechanism of action of bioactive compounds? The case of phytocannabinoid CBDA”_2D/3D Global proteome_2D Part 3

The scope of the present work concerned the investigation of the CBDA-EIF2A interaction in 3D-U87MG cell model.
For Global Proteome analysis, U87MG cells cultured in 2D- and 3D-cell model underwent to in-gel digestion with trypsin enzyme and processed for LC-MS/MS analysis.
Raw files obtained from the QExactive mass spectrometer were processed with Proteome Discoverer software. Trypsin was used as the enzyme for protein digestion. Fasta file UP000005640_9606 was set as protein database. The maximum number of missed cleavages was set to 2. Unique peptides were set for quantification. Precursor and fragment mass tolerance were set, respectively, as 10ppm and 0.02 Da. Quantitative analysis was set as ratio 3D/2D.