GSM5994471
IPF patients were diagnosed based on multidisciplinary review and published criteria. Non-IPF donor lungs not suitable for transplantation were obtained from the Regional Organ Bank of Illinois. IPF lungs were grossly examined within 6-12 hours from the time of explant, and multiple 1cm3 biopsies were obtained from visibly non-fibrotic central (IPF.C) and fibrotic peripheral (IPF.P) areas. Non-IPF donor lung biopsies of central (CTR.C) and peripheral (CTR.P) were similarly obtained. H&E-stained biopsies were reviewed and confirmed by two clinical pathologists Total RNA was isolated using TRIzol (Invitrogen) following manufacturer's protocol. All RNA samples displayed RNA Integrity Number (RIN) >7. RNAseq including cDNA library preparation was processed at the Genomics Core Facility of University of Chicago (https://fgf.uchicago.edu/). Total RNA in the amount of 100-500µg per sample was depleted of ribosomal RNA using the Ribo-Zero kit (Epicentre, Madison, WI). The directional (first strand) cDNA libraries were prepared following the guide of TruSeq Stranded Total RNA Sample Preparation kit.