The pipelines used for RNA-seq data analysis of Crohn disease (CD) patients compared to the healthy donors.
The followings are data sets used in this study:
[1] GSE164871: RNA-seq of 4 Crohn's disease and 4 control (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE164871)
[2] GSE66207: mRNA and small RNA associated with Crohn's disease behavior [RNA-Seq] (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE66207)
[3] GSE99816: A distinct epigenetic profile distinguishes stenotic from non-inflamed fibroblasts in the ileal mucosa of Crohn's disease patients [RNA-seq] (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE99816)