Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2023 Jul 26;14:4506. doi: 10.1038/s41467-023-40156-6

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

© The Author(s) 2023, corrected publication 2024

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

PMC Copyright notice

Fig. 5 — a Ridge plot of co-localization analysis of IDA macrophages and epithelial, other myeloid, stromal and T lymphocytes by CosMx^TM SMI. Correlation for cell positions was calculated per cell type (0 indicates no correlation, >1 indicates co-localization with 1 being cells sharing the same position; <1 indicates negative correlation between the indicated cell types). Data is pooled from all CD (n = 3 donors, total of 56 Fields of View (FoVs)) and UC (n = 3 donors, 67 FoVs) patients. b Co-localization analysis between IDA macrophages and inflammatory fibroblasts in inflamed UC tissue. Six representative FoVs from 2 independent UC patients are shown. Co-localization scores are indicated in white for each FoV. Scale bar = 100 μm. c Images containing IDA macrophages and inflammatory fibroblasts. Three representative FoVs (from 2 patients, 1 UC and 1 CD) are shown. Expression of CD68 (macrophages) or CHI3L1 (inflammatory fibroblasts) is shown as red dots. Each dot represents a single mRNA molecule. Scale bar = 100 μm. d Violin plots showing expression (y-axis) of marker genes (x-axis) of inflammatory fibroblasts in HC (n = 6), active CD (n = 6) and active UC (n = 6) determined by scRNA-seq. e Expression of markers of inflammatory fibroblasts in HC (n = 8), and active CD (n = 22) and UC (n = 26) patients in bulk biopsy RNA-seq data. Ordinary one-way ANOVA test (Benjamini-Yekutieli) was performed correcting for multiple comparisons. Each sample is represented as a dot and the median value as a line p < 0,05(*), p < 0,01 (**), p < 0,001(***), p < 0,0001(****), ns: not significant. f Violin plot visualizing scRNAseq-based expression (y-axis) of prostaglandin-related genes in inflammatory fibroblasts, IDA macrophage, M2 (M2 & M2.2) and M1 (M1 ACOD1 & M1 CXCL5) in pooled data of HC (n = 6), CD (n = 6) and UC (n = 6). Expression of CSF3 and CSF2 in inflammatory fibroblasts has been also included. Source data are provided as a Source Data file. HC, healthy controls. IBD, inflammatory bowel disease. CD, Crohn’s disease. UC, ulcerative colitis.