Fig. 3.

Proteomic analysis identifies Stat1 as a candidate downstream target of C9orf72. (a) Experimental workflow for label-free quantitative proteomic analysis. N2a cells were transfected with either control vector or C9orf72, in the presence or absence of GFP-mHTT expression. Cell lysates were subjected to LC-MS/MS analysis, resulting in the identification of approximately 1921 high-confidence proteins. (b) Volcano plots showing differentially expressed proteins (DEPs) identified in two comparisons: Ctrl vs. C9orf72 (left) and GFP–mHTT + Ctrl vs. GFP–mHTT + C9orf72 (right). Each dot represents a quantified protein. Upregulated proteins are indicated in red and downregulated proteins in blue, based on fold-change and statistical significance thresholds. (c) Venn diagram showing the overlap of DEPs between the two comparisons. A total of four proteins were commonly altered in both datasets. The table lists the overlapping proteins along with their fold changes (mHTT + C9orf72/mHTT + Ctrl) and P values.