cnt1 ko mouse pancreas
Total RNA from ko mouse pancreas was extracted using the Qiagen total RNA extraction kit. 500-1000ng of extracted RNA was used for further processing and analysis at Genomics core at Nationwide Hospital (Columbus, OH). Low-quality reads (q<10), and adaptor sequences were eliminated from raw reads using bbduk version 37.64. Each sample was aligned to the GRCm38.p3 assembly of the Mus musculus reference from NCBI (GCF_000001635.23) using version 2.6.0c of the RNA-Seq aligner STAR. Features were identified from the GFF file that came with the assembly from Gencode (Release M19). Feature coverage counts were calculated using featureCounts Differentially expressed features were calculated using DESeq2.