biostudies-arrayexpressAlexandra GatziosHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-1589192 human skin-derived precursor (hSKP) cell lines, isolated from unique donors, were genotyped for the following SNPs that have been linked to metabolic dysfunction-associated steatotic liver disease (MASLD) onset and progression: PNPLA3 rs738409 C>G, TM6SF2 rs58542926 C>T, GCKR rs1260326 C>T and MBOAT7 rs641738 C>T. Based on carriage of these SNPs, the polygenic risk score for hepatic fat content (PRS-HFC) was calculated for each cell line and used for classification in either a low, intermediate or high risk category. From the low and high risk category, five cell lines were selected and differentiated to hepatic progenitor-like cells (hSKP-HPCs) before exposing the cells for 24 hours to either vehicle-matched control medium or a mixture of MASH-related triggers including sodium oleate, biostudies-arrayexpressSequencing - Bulk RNA Barcoding and sequencing (BRB-seq) as published by Alpern et al 2019 (doi 10.1186/s13059-019-1671-x).Library Construction - The sequencing libraries were built by tagmentation using 50 ng of ds cDNA with the Illumina Nextera XT Kit (Cat no. FC-131-1024) following the manufacturer’s recommendations.Sample Collection - Samples were lysed directly in the cell culture vessels (Falcon 6-well Clear Flat Bottom Polystyrene) using Buffer RLT (QIAwave RNA Mini Kit, Cat no. 74534), supplemented with beta mercaptoethanol, and QIAshredder cell-lysate homogenizers (Cat no. 79656).Nucleic Acid Extraction - Total RNA was extracted from adherent cells using the QIAwave RNA Mini Kit (Cat no. 74534) according to the manufacturer's protocols.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesSequence Alignment - The first read contains 16 bases that must have a quality score higher than 10. The first 6 bp correspond to a unique sample-specific barcode and the following 10 bp to a unique molecular identifier (UMI). The second reads were aligned to the homo sapiens reference transcriptome from the UCSC website (release hg38) using BWA version 0.7.4.4 with the parameter “-l 24”.Data Transformation - Raw count matrices were generated and normalized with the DESeq2 package in R.MetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RNA-seq of coding RNAHomo sapiensAlexandra GatziosfalseBRBseq of human skin-derived precursor hepatic progenitor-like cells with varying polygenic risk score for hepatic fat content exposed in vitro to vehicle-matched control medium or triggers related to MASH92 human skin-derived precursor (hSKP) cell lines, isolated from unique donors, were genotyped for the following SNPs that have been linked to metabolic dysfunction-associated steatotic liver disease (MASLD) onset and progression: PNPLA3 rs738409 C>G, TM6SF2 rs58542926 C>T, GCKR rs1260326 C>T and MBOAT7 rs641738 C>T. Based on carriage of these SNPs, the polygenic risk score for hepatic fat content (PRS-HFC) was calculated for each cell line and used for classification in either a low, intermediate or high risk category. From the low and high risk category, five cell lines were selected and differentiated to hepatic progenitor-like cells (hSKP-HPCs) before exposing the cells for 24 hours to either vehicle-matched control medium or a mixture of MASH-related triggers including sodium oleate, 2026-07-20T00:00:00Z2026-07-20T13:09:22.803Z2026-07-20T13:09:06.708ZE-MTAB-15891EFO_0002944EFO_0004170EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184