Identification of eIF4A1-binding RNAs in human prostate cancer cell line DU145

We screened the translational targets of eIF4A1 in DU145 cells using the Native RNA immunoprecipitation (RIP) assay with RNA-seq (RIP-seq). The eIF4A1-binding peaks and RNA fractions were normally distributed around the ATG translation start site. A total of 197 coding genes with eFI4A1-binding peaks in mRNAs, including 5' UTR, exon, and 3' UTR regions. were identified in the eIF4A1-RIP sample. The most enriched eFI4A1-binding motifs (MAGGTA, CCASCYC, and GARGA) were identified by aligning the sequences of all eFI4A1-binding RNA fractions to a reference genome. RNA immunoprecipitation (RIP) assay with RNA-seq (RIP-seq) was performed in paired sets with eIF4A1- and IgG-derived IPs, respectively, using human prostate cancer cell line DU145.