Fig. 9: Proteomic analysis of Httex1 72Q-GFP in the Urea soluble fraction revealed 55% differences compared to tag-free Httex1 72Q for the proteins co-aggregated with Httex1 in HEK cells.

a Identified proteins were illustrated using a volcano plot for the comparison of protein levels identified in the Urea soluble fraction 48 h after Httex1 72Q-GFP or GFP transfection in HEK cells, in 3 independent experiments. Mean difference (Log2 (Fold-Change) on the X-axis) between the Urea soluble fraction of HEK cells overexpressing Httex1 72Q-GFP or GFP were plotted against significance (Log10 (p-Value) on the Y-axis (T-Test)). A false discovery rate (FDR) of 0.05 and a threshold of significance S0 = 0.5 were assigned for the subsequent analyses. b Cell compartment classification of the proteins significantly enriched in the Urea soluble fraction of the HEK cells overexpressing Httex1 72Q-GFP versus those expressing GFP. Gene Ontology (GO) enrichment analyses were determined by DAVID analysis (Significant for p values < 0.05 adjusted for multiple testing based on Benjamini and Hochberg). c To compare the results obtained with Httex1 72Q-GFP to tag-free Httex1 72Q, we represented the proteins enriched in Httex1 72Q vs. Httex1 16Q compared to the proteins enriched in Httex1 72Q-GFP vs. Httex1 16Q using a Venn diagram. In total, 256 proteins (44.6%) were found similar between the two conditions, 198 proteins (34.5%) were unique for Httex1 72-GFP enrichment, and 120 proteins (20.9%) were for Httex1 72Q enrichment. d Kyoto Encyclopedia of Genes and Genomes (KEGG) Pathway Analysis of co-aggregated proteins with Httex1 72Q and Httex1 72Q-GFP. The heat map represents significant pathways (KEGG) enriched in the Urea soluble fractions extracted from the Venn diagram (c): co-aggregated proteins unique to Httex1 72Q, unique to Httex1 72Q-GFP, and common to both conditions, all compared to Httex1 16Q control. Source data are provided as a Source Data file.