Transcriptome analysis of neuroblastoma SH-SY5Y cells upon DDX17 helicase knock-down

DDX17 is a DEAD-box RNA helicase protein which is involved in many aspects of RNA metabolism, from gene transcription to RNA processing and decay. As a simple approach to identify DDX17 target genes, we carried out a transcriptome analysis of the human neuroblastoma cell line SH-SY5Y following DDX17 gene knock-down Cells were transfected with a mixture of validated siRNA against DDX17, and cells were harvested after 48h. Total RNA were isolated using TriPure Isolation Reagent (Roche). Directional RNA libraries were prepared from total RNA after removal of ribosomal RNA (lncRNA library, Novogene). High throughput sequencing of 150 bp paired-end reads was carried out on an Illumina Novaseq 6000 platform (Novogene), generating at least 24 Gigabases of raw data per sample, for an average number of 56 millions of matched pairs of reads per sample.