GSM8389884: 105506-001-006, Lung, wild-type, Air, 4 weeks; Mus musculus; RNA-Seq
Total RNA from whole lung tissue from wild type (WT) and Bmp6 knockout (Bmp6-/-) mice was isolated using the miRNeasy Mini Kit (Qiagen, 217604). RNA-seq was conducted using the Illumina NovaSeq 6000 sequencer by GenomeScan (https://www.genomescan.nl/). The procedure included data quality control, adapter trimming, alignment of short reads and feature counting. Library preparation was checked by calculating ribosomal (and globin) content. Checks for possible sample and barcode contamination were performed and a set of standard quality metrics for the raw dataset was determined using quality control tools (FstQC v0.34 and FastQA). Prior to alignment, the reads were trimmed for adapter sequences using Trimmomatic v0.30. To align the reads of each sample, the the  mouse reference GRCm39 was used. Data was analyzed with DESEQ2 in R studio