title: GSM4781511: MKN-28 cells, PTBP1 RIP-seq; Homo sapiens; RIP-Seq
library_construction_protocol: RIP experiments were conducted using a PTBP1 antibody (Cell Signaling Technology) or IgG (Cell Signaling Technology) with the Magna RIP RNA-Binding Protein Immunoprecipitation Kit (Millipore, Bedford, MA, USA) according to the manufacturer's instructions . Briefly, 100 μL MKN-28 cell extract was incubated with magnetic beads-antibody complex. The antibodies were used for RIP, and IgG served as a negative control. Total RNA was isolated with Trizol (Invitrogen), and ribosomal RNA was removed from total RNA using a Ribo-Zero™ rRNA Removal Kit (Illumina, USA). RNA-seq was performed using HiSeq4000 (Illumina, USA). RNA libraries were prepared for sequencing using standard Illumina protocols