title: RNA-Seq of MASH patient hepatocytes treated with Livogrit
design: HMR-based Library Preparation and Sequencing was performed. FastQC (v 0.11.9) was used to assess the quality of the sequencing data. In the preprocessing step, fastp (v 0.20.1) was employed to evaluate the quality of sequencing data to warrant that the data met a minimum phred score threshold of > 20, to ensure high-quality base calling. The hisat2 (v 2.2.1) was used for indexing and mapping of the processed data and the generated SAM files were used for further analysis. The reference genome used was GRCh38.p14.genome.fa from gencode. The analysis of both mRNA and lncRNA was performed for all the groups. The htseq-count (v 2.0.5) was used to quantify the gene expression of the mapped data using GTF file references.
library_name: L1F1