Oxford Nanopore direct RNA sequencing of RNA in Drosophila melanogaster S2 cells: control versus dNep1 (CG6133) knockdown
Oxford Nanopore Technologies direct RNA sequencing (ONT DRS) of nuclear RNA from Drosophila melanogaster Schneider 2 (S2) cells, comparing control (untreated/scrambled) and dNep1 (CG6133) dsRNA knockdown conditions, in three biological replicates each. Libraries were prepared from in vitro polyadenylated, de-proteinised nuclear RNA using the SQK-RNA002 kit and sequenced on a MinION with FLO-MIN106D R9.4.1 flow cells, generating >1 million reads per sample. The dataset was generated to detect modified and unmodified nucleotides (pseudouridine and methylation) on 18S ribosomal RNA at single-molecule resolution, focusing on the hypermodified pseudouridine site, using signal-level comparison (Nanopolish eventalign and Nanocompore). The data underpin analysis of how the ribosome biogenesis factor dNep1 contributes to 18S rRNA modification, as part of a study of RpS19a depletion and atypical ribosome formation driving hematopoietic tissue overgrowth in Drosophila. Native fast5 signal files and basecalled FASTQ (Guppy 5.0.7) are provided.