Expanding the landscape of human snoRNAs through integrative transcriptomic analysis

This deposit contains the nanopore sequencing raw pod5 files and the processed table used for the analyses of the associated paper. Data generation SKOV3ip1 cell were grown in DMEM/F12 (50/50) medium supplemented with 10% (FBS) and 2mM de L-glutamine. RNA extraction was performed as described in https://doi.org/10.1093/narcan/zcab050 using the RNeasy Mini Kit (Qiagen, Germany). RNA concentration and integrity was assed using the 21000 Bioanalyzer (Agilent Technologies, USA). Polyadenylation was carried out on 500ng of RNA as described in https://doi.org/10.64898/2026.06.08.730855. rRNA modications were profiled by Oxford Nanopore direct RNA sequencing in two replicates of SKOV3ip1 cells. Data processing Raw files were bascalled for modification quantification with dorado v1.3.0 model 130bps_sup@5.1.0_pseU and aligned with minimap2 v2.3.Demultiplexing and quality filtering was done with SeqTagger v1.0d. Prediction were compiled at each U position with modkit pileup v 0.5.1 (parameter : “--motif T 0 --filter-threshold T:0.90”).Only predictions corresponding to previously mapped pseudouridine positions, with a minimal local coverage of 20 reads, and with a minimum frequency of 15% were considered.