Supplementary Figure 4: Enrichment of DDX21Interation for ribosome complex.

(a) AES knockdown did not affect transcription from DDX21 bound promoters. Nascent transcripts levels (FPKM) in control and AES knockdown Kasumi-1 cells were used from Nascent RNA-seq as described in Supplementary Fig. 3. DDX21 bound genomic regions were obtained from publically available ChIP-Seq data (GSE56802). Box plots represent fold change (shAES/shCtr, log₂ scale) of transcripts originating from promoter regions either bound or not bound by DDX21. As indicated, DDX21-bound gene transcripts were not generally suppressed or enhanced upon loss of AES. The central mark in box plot is mean, with 5/95 percentiles at the whiskers and 25/75 percentiles at the box. (b) DDX21 interaction was enriched for ribosome complex. Mass Spectrometry analysis of SILAC labelled proteins was performed for DDX21 interaction partners at the presence or absence of AES. IP with anti-DDX21 antibody (or IgG control) was performed in protein lysates from Kasumi-1 cells transduced with either shAES or shControl. The ratio of precipitated interaction partners (anti-DDX21/IgG) was analyzed. Circles in red indicate proteins found to interact with DDX21. Proteins labelled in gray are known ribosome complex members that were not identified in our Mass Spectrometry analysis. Gray lines designate protein interactions.