GSM6793368: DDX42 CLIP treated with PladB (rep2); Homo sapiens; RIP-Seq
HCT116 replicates were treated with 400 mJ of UV using the CL-1000 UV Crosslinker, harvested in ice cold PBS and pelleted by centrifugation. Cell pellets were flash frozen in liquid nitrogen and stored in -80 degrees until ready to IP with HA antibody-bound Dynabeads (antibody: CST 3724S). Subsequent protocol was followed as detailed in Van Nostrand et al, Methods Mol Biol 2017. Sequencing was performed on Illumina Novaseq 6000 single-end reads and data processed through Dr. Yeo's seCLIP pipeline. Libraries were constructed as per the (s)eCLIP protocol using Illumina 50x forward and 70x reverse primers.