biostudies-arrayexpressAgnes BonifaciusHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15708CD19-CAR-T cells were generated from human primary CD3+ T cells of three donors in presence or absence of vitamin C. RNA was isolated after 24h of co-culture with Nalm-6 cells. Details of experimental design can be found in the M&M section of the manuscript.biostudies-arrayexpressSample Collection - CD19-CAR-T cells were generated from human primary CD3+ T cells of three donors in presence or absence of vitamin C. RNA was isolated after 24h of co-culture with Nalm-6 cells. Details of experimental design can be found in the M&M section of the manuscript.Library Construction - The RNA sequencing library was generated from 500 ng total RNA using the Dynabeads® mRNA DIRECT™ Micro Purification Kit (Thermo Fisher Scientific) for mRNA purification, followed by the NEBNext® Ultra™ II Directional RNA Library Prep Kit (New England BioLabs) according to the manufacturer's protocols.Sequencing - Each FASTQ file received a quality report generated by the FASTQC tool. Before alignment to the reference genome, each sequence in the raw FASTQ files was trimmed for base call quality and sequencing adapter contamination using the Trim Galore! wrapper tool. Reads shorter than 20 bp were removed from the FASTQ file. Trimmed reads were aligned to the reference genome using the open-source short-read aligner STAR (https://code.google.com/p/rna-star/) with settings according to the log file. Feature counts were determined using the R package \"Rsubread\". Only genes showing counts greater than 5 at least twice across all samples were considered for further analysis (data cleansing). Gene annotation was done using the R package \"bioMaRt\".Nucleic Acid Extraction - RNA was isolated using the RNeasy Plus Kit (Qiagen)OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - Before starting the statistical analysis steps, expression data were log2 transformed and normalized according to the 50th percentile (quartile normalization using edgeR). Differential gene expression was calculated using the R package \"edgeR\". Functional analysis was performed using the R package \"clusterProfiler\".MetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RNA-seq of total RNAHomo sapiensAgnes BonifaciusfalseRNAseq of CD19-CAR-T cells generated in presence or absence of vitamin CCD19-CAR-T cells were generated from human primary CD3+ T cells of three donors in presence or absence of vitamin C. RNA was isolated after 24h of co-culture with Nalm-6 cells. Details of experimental design can be found in the M&M section of the manuscript.2025-11-18T00:00:00Z2026-05-30T15:40:18.919Z2025-10-13T15:31:49.65ZE-MTAB-15708ERP182065EFO_0002944EFO_0004170EFO_0009653EFO_0005518EFO_0003816EFO_0004184