Extended Data Fig. 6: Comparison of 47S-targeted O-MAP-MS and HyPro-MS.
Top: Venn diagram of enriched proteins from 47S-targeted HyPro-MS (gray) and the k-medoid-derived high-confidence O-MAP nucleolar proteome (Fig. 3j; Supplementary Table 3). Note that O-MAP enriches more than 50% of the HyPro nucleolar proteome. Bottom: Gene Ontology analysis of the outlier proteins observed by HyPro-MS (101 proteins; left) and by O-MAP-MS (194 proteins, right). The top 10 most highly enriched terms are shown. Note that the O-MAP-MS outliers are predominantly nucleolar proteins and ribosome biogenesis factors, suggesting that HyPro has undersampled the nucleolar proteome. In contrast, HyPro outliers exhibit little association with the nucleolus or its central functions, suggesting that they may be noise. Hypergeometric test with Benjamini-Hochberg correction.
