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. 2023 Jun 26;222(9):e202207060. doi: 10.1083/jcb.202207060

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© 2023 Choudhry et al.

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Figure 2. — Systems biology approaches identify the Ctf18-RFC complex as a mediator of Nup170’s gene regulatory functions. (A) Schematic of our approach to identify and prioritize candidates that mediate gene regulatory roles of the nucleoporin Nup170. The LC-MS analysis of affinity-purified Nup170-GFP identified 557 putative, transient, vicinal non-nucleoporin interactors, 60 of which have known genetic interactions with NUP170. Among genetically and physically interacting candidates, transcriptomic profiles of ctf18∆ and ubp3∆ strains were significantly similar to the nup170∆ strain in a compendium of deletion strain transcriptomes. (B) Heatmap showing gene expression profiles of the nup170∆ strain and the three (ctf18∆, ctf8∆, and dcc1∆) viable deletion strains for Ctf18-RFC complex constituents. The P values are from hypergeometric tests. (C) Cytoscape network illustrating the interaction between Nup170 and the Ctf18-RFC complex.