GSM5964878: S.6707; Mus musculus; RNA-Seq
Hepa 1-6 FFPE scrolls were processed for DNA and RNA extraction using a Quick-DNA/RNA FFPE Miniprep Kit with on-column DNase digestion for the RNA preps (Cat. # R1009; Zymo Research). RNA was assessed for mass concentration using the Qubit RNA Broad Range Assay Kit (Cat. # Q10211; Invitrogen) with a Qubit 4 fluorometer (Cat. # Q33238; Invitrogen). RNA quality was assessed with a Standard Sensitivity RNA Analysis Kit (Cat. # DNF-471-0500; Agilent) on a Fragment Analyzer System (Cat. # M5310AA; Agilent). Sequencing libraries were prepared using TruSeq Stranded Total RNA Library Prep Gold (Cat. # 20020599; Illumina). RNA DV200 scores were used to determine fragmentation times. Libraries were assessed for mass concentration using a Qubit 1X dsDNA HS Assay Kit (Cat. # Q33231; Invitrogen) with a Qubit 4 fluorometer (Cat. # Q33238; Invitrogen). Library fragment size was assessed with a High Sensitivity NGS Fragment Analysis Kit (Cat. # DNF-474-0500; Agilent) on a Fragment Analyzer System (Cat. # M5310AA; Agilent). Libraries were functionally validated with a KAPA Universal Library Quantification Kit (Cat. # 07960140001; Roche). Sequencing was performed to generate paired-end reads (2  100 bp) with a 200-cycle S1 flow cell on a NovaSeq 6000 sequencing system (Illumina).