Volcano plot analysis of IP-MS data.

The relative abundance of proteins compared between two samples (log₂ of fold difference, x axis) is plotted against statistical significance (-log₁₀ of P-value, y axis) with each point representing a protein identified by 2 or more unique peptides. The curved lines on right hand side of plots delimit outliers with high relative abundance and significance in bait sample. PRC2 components are highlighted in blue, ALPs in red, for the full list of the most highly enriched proteins see S3 Dataset. A. Comparison of 35S::GFP-ALP2 and 35S:GFP IPs shows that ALP1 and PRC2 core components are highly enriched. B. Comparison of pALP1::ALP1-GFP with 35S::GFP IPs shows that ALP2 and PRC2 core components are highly enriched. C. Comparison of pALP1::ALP1-GFP IPs in ALP2⁺ and alp2-1 backgrounds shows that PRC2 core components are highly enriched in ALP2⁺ samples and depleted in alp2-1.