© Gareth Rhys-Jones
To identify the biological processes underpinning the macrophage (Μφ) contribution to the pathogenesis of Crohn’s Disease (CD) by:
We will identify new potential CD patients by screening colonoscopy referrals for prior calprotectin, radiology and the electronic health record.
Patients then attending for index colonoscopy to confirm CD diagnosis will be consented using existing ethical approvals for sampling of inflamed/non-inflamed colon with paired blood. Lamina propria (LP) and blood Μφs will be isolated, whereupon detailed phenotyping by flow cytometry, single cell ATAC and RNA sequencing will permit the first ever combination single cell profiling of CD Μφs.
Specifically, Live/singlet/CD45+/CD3,CD19-/HLA-DRint/+ colon LP and Live/singlet/CD66b, CD56, CD3, CD19- whole blood cells will be purified by fluorescence-activated cell sorting, from which 8000 cells will be loaded onto a ChromiumTM controller using GemCode Gel Bead and Chip, all from 10x Genomics (V3, Pleasanton, CA). Library preparation and sequencing (Illumina NovaSeq SP 28/8/96) will be performed according to the manufacturer’s instructions, aiming for 30,000 reads per cell.