Fig. 3: Integration of in vivo localization and genome-wide genetic interaction data provide functional insights into our set of interactors.

a Pab1 PAR-CLIP data show a significant peak on both RBG2 (p-value = 1.5e⁻¹⁴) and YEF3 (p-value = 9.1e⁻⁹) target genes and overlap with the conserved RNA fold region (colored salmon). Folded structures are shown, with positional entropy values ranging from red/yellow (lower entropy) to green/blue (higher entropy). b Pull-down and Western blotting on a TAP-tagged Pab1 strain validated Pab1 binding to the RBG2 RNA fold. c RNA immunoprecipitation (RIP) experiments in wild-type and endogenously TAP-tagged strains show enrichment of target RNAs in Pab1 (for RBG2 and YEF3), Sbp1 (for PMA1) and Bfr1 (for BMH1). Results are shown relative to input signals normalized to the −RT (no reverse transcriptase) conditions. Data are presented as mean ±SEM values in n = 3 technical replicates. d Matrix showing genetic interactions described for our RBP (x axis) and RNA fold (y axis) interacting pairs. Genetic interactions with a fitness score > 0.08 are colored according to positive (green) and negative (red) interactions. The circle size is proportional to the fitness score of the double knock-out strain of the two relevant genes. e Clustering of our RBP candidate genes and mRNA genes according to the genetic interaction profile correlations (similar genetic interaction profiles considered upon PCC values > 0.2). Red numbers indicate the ID of the respective gene community (Supplementary Data 4).