1. Volume 156, Issue 3, Pages 812-815.e22 (February 2019)
Single-Cell RNA Sequencing of Blood and Ileal T Cells From Patients With Crohn's Disease Reveals Tissue-Specific Characteristics and Drug Targets 
Werna T. Uniken Venema, Michiel D. Voskuil, Arnau Vich Vila, Gerben van der Vries, Bernadien H. Jansen, Bana Jabri, Klaas Nico Faber, Gerard Dijkstra, Ramnik J. Xavier, Cisca Wijmenga, Daniel B. Graham, Rinse K. Weersma, Eleonora A. Festen 
Gastroenterology 
Volume 156, Issue 3, Pages e22 (February 2019)
DOI: /j.gastro
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2. Figure 1
Experimental flowchart. EDTA and collagenase are treatments used to isolate IELs and LPLs, respectively. T-cell subtype characterization was performed as described in the Supplementary Methods. The number of epitopic CD8αβ-positive T cells measured by flow cytometry is presented within brackets. FACS, fluorescence-activated cell sorting; TCR, T-cell receptor.
Gastroenterology  , e22DOI: ( /j.gastro )
Copyright © 2019 AGA Institute Terms and Conditions

3. Supplementary Figure 1
T-distributed stochastic neighbor embedding plots representing T cells pooled from 3 individual patients with CD. (A) T-distributed stochastic neighbor embedding plot representing transcriptomes from T cells in peripheral blood (circles) and intestinal mucosa (triangles). (B) T-distributed stochastic neighbor embedding plot representing transcriptomes from intestinal mucosal T cells as depicted in A. IELs are presented as circles and LPLs are presented as triangles. (C) T-distributed stochastic neighbor embedding plot indicating the presence of surface markers on intestinal mucosal T cells, measured by flow cytometry, in a binary fashion. (D–G) T-distributed stochastic neighbor embedding plots featuring expression of cellular marker genes in intestinal mucosal T cells. Plots represent gene expression values of a particular gene, measured by scRNAseq, ranging from Q0 to Q75 of normalized expression values per gene. Effector/Treg, Treg lymphocytes on an effector memory background; Quiescent, quiescent T lymphocytes; REG1A/1B, cells highly expressing REG1A/1B without expressing Paneth cell markers; Treg/quiescent, Treg lymphocytes on a quiescent background.
Gastroenterology  , e22DOI: ( /j.gastro )
Copyright © 2019 AGA Institute Terms and Conditions