biostudies-arrayexpressThorsten KlampflMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15486To explore transcriptional similarities between human and murine Anaplastic Large Cell Lymphoma (ALCL) cell lines, RNA sequencing was performed across both species. The human cell lines included SU-DHL-1, DEL, SUP-M2, Karpas-299, SR-786, Mac1 and Mac2a. Additionally, murine cell lines derived from tumors with distinct genetic backgrounds (NPM-ALK(Tg/+), NPM-ALK(Tg/+)Cdk6-/- and NPM-ALK(Tg/+)Stat5b-/-) were analyzed to identify gene expression differences associated with tumor development in the absence of CDK6 or STAT5B.biostudies-arrayexpressNucleic Acid Extraction - RNA was isolated using the Qiagen RNeasy Mini kit according to the manufacturers protocol.Sequencing - Libraries were sequenced on an Illumina NovaSeq 6000 system (Illumina, San Diego, CA, USA) in paired-end mode with 50 bp read length.Sample Collection - Cells from mouse and human cell lines were harvested from cell culture.Library Construction - Libraries for RNA sequencing were prepared using the NEBNext Ultra II stranded poly-A library prep kit (New England Biolabs, Ipswich, MA, USA).OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesSequence Alignment - Raw sequencing reads were quality controlled using Fastqc (version 0.12.1). Adapters and low-quality reads were trimmed using Trimmomatic (version 0.39) and the resulting reads were again quality controlled with Fastqc. The processed reads were aligned against reference genomes using STAR (version 2.7.6a). For mouse samples, the GRCm38 primary assembly reference genome (Gencode vM25) was used together with the Gencode vM25 primary assembly annotation gene model. Human samples were aligned against the GRCh38 primary assembly reference genome (Gencode v26). The gene model used for the human data was the Gencode V26 primary assembly annotation. QC of the alignments was done with Qualimap (version 2.2.2a)Data Transformation - Reads overlapping exons were counted with the FeatureCounts program of the Subread package (version 2.0.1) and summarized as total counts per gene.MetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RNA-seq of coding RNAMus musculusKaroline KollmannThorsten KlampflJonatan KendlerfalseRNA-seq of human and murine ALCL cell lines to compare interspecies similarity and genetic dependencies on CDK6 or STAT5BTo explore transcriptional similarities between human and murine Anaplastic Large Cell Lymphoma (ALCL) cell lines, RNA sequencing was performed across both species. The human cell lines included SU-DHL-1, DEL, SUP-M2, Karpas-299, SR-786, Mac1 and Mac2a. Additionally, murine cell lines derived from tumors with distinct genetic backgrounds (NPM-ALK(Tg/+), NPM-ALK(Tg/+)Cdk6-/- and NPM-ALK(Tg/+)Stat5b-/-) were analyzed to identify gene expression differences associated with tumor development in the absence of CDK6 or STAT5B.2026-07-24T00:00:00Z2026-07-24T11:06:37.518Z2025-08-13T15:05:43.902ZE-MTAB-15486ERP178740EFO_0002944EFO_0004170EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184