We are interested in the host transcriptome data and the bacterial data (both 16S and metagenomics) in the presence of inflammation. Our focus is the inflammatory state in UC patients undergoing total proctocolectomy and how inflamed pouches are compared to other IBD types. Therefore it is important for us to understand if the sample was taken from an active inflammation (determined by histology endoscopy).
The column “is inflamed?” in the supplementary data was determined by the dysbiosis rather than the endoscopic/ histologic appearance?
If so, you pretty much cleared it for me and the only question left is regarding the non-IBD patients - can I assume that they are not actively inflamed?
Thank you very much again!