GSM9065387: Male, Donor2, Wild Type, Static; Mus musculus; RNA-Seq
Meniscus tissue from three mice per group was used for bulk RNA sequencing. Immediately following the three-week mechanical stimulation, all four menisci from each mouse were pooled and preserved in TRIzol at −80°C, yielding one data point per mouse. Total RNA was extracted from ground tissue using the PuroSPIN™ NanoElute™ Total RNA Purification Kit (Luna Nanotech, Canada) according to the manufacturer's instructions. Purified RNA samples were submitted to the University of British Columbia Biomedical Research Centre (UBC-BRC) for next-generation sequencing on the Illumina NextSeq 2000 platform. Sequencing reads were returned in FastQ format for downstream bioinformatics analyses. Raw sequencing reads were processed in Partek® Flow® (version 12.5.0). A Phred quality score threshold of 20 was applie d to trim bases from the 3′ end. Trimmed reads were aligned to the mouse genome (mm39) using the STAR aligner (v2.7.8a), then quantified against mm39-GENCODE Genes (release M35) using the Partek E/M algorithm.