GSM8744726: S03, Viral Hepatitis and peri-tumor; Homo sapiens; RNA-Seq
For total RNA extraction, snap-frozen human liver tissues were subjected to homogenization using stain-free steel beads in PowerLyzer 24 (Hilden, Germany) followed by Zymo Research Quick RNA Miniprep kit (Irvine, CA, USA) manufacturer's protocol. The quality and quantity of the extracted RNA were assessed spectrophotometrically using NanoDrop (Thermofisher, Waltham, MA, USA), and the RNA integrity number (RIN) values were measured by TapeStation (Agilent Tech, Santa Clara, CA, USA). The amount of total RNA was measured more accurately by fluorometric determination with an RNA Broad Range kit (Thermofisher, Waltham, MA, USA) by using Qubit (Thermofisher, Waltham, MA, USA, USA). Preparation of total RNA-Seq libraries was performed with Illumina Stranded Total RNA Prep and Ligation with Ribo-Zero Plus kit following the manufacturer's standard protocol. The libraries were then pair-end (2X100bp) sequenced on the NovaSeq 6000 platform, generating, on average, 25 million fragment reads per sample. Raw sequence data (.bcl) was converted to FASTQ with the Dragen Bio-IT platform (v3.9.5). The quality of RNA-seq data was assessed by FastQC(v0.11.9).