RNA sequencing data from the CLL cell line HG3 (HG-3) by Oxford Nanopore Technologies based direct RNA long-read sequencing.

<p dir="ltr">This is the sequencing data from direct RNA long-read sequencing by Oxford Nanopore Technologies of the chronic lymphocytic leukemia cell line HG3 (HG-3).</p><p dir="ltr">Total RNA was extracted using the RNAeasy kit (Qiagen, Hilden, Germany). Sequencing libraries were generated from ~5 ?g of high-quality RNA (RIN >9.7) as assessed by Agilent 2100 Bioanalyzer (Agilent Technologies, CA, USA). The direct RNA Sequencing kit (SQK- RNA002; Oxford Nanopore Technologies, Oxford, UK) was used according to the manufacturerÕs recommendations. Sequencing libraries were sequenced on a PromethION (Oxford Nanopore Technologies, Oxford, UK) using PromethION R9.4.1 flow cells (Oxford Nanopore Technologies, Oxford, UK). Basecalling was performed using Guppy v6.1.2 and passed FASTQ files were analyzed using nf-core/nanoseq v1.1.0 pipeline1. The FASTQ files were aligned to the reference genome hg19 using Minimap2 v2.1717. The resulting bam and index file are deposited here.</p><p dir="ltr">The data has been used in the publication by Hagerstrand and Oder et al. The non-canonical BAF chromatin remodeling complex is a novel target of spliceosome dysregulation in SF3B1-mutated chronic lymphocytic leukemia, Leukemia 2024 (https://doi.org/10.1038/s41375-024-02379-4).</p><p dir="ltr">Researchers are welcome to use the data contained in the dataset for any scientific projects according to license CC BY-NC-ND 4.0.</p>