Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis
Genome-wide association studies (GWAS) have revealed risk alleles for ulcerative colitis (UC). To understand their cell type specificities and pathways of action, we generate an atlas of 366,650 cells from the colon mucosa of 18 UC patients and 12 healthy individuals, revealing 51 epithelial, stroma...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier BV
2020
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| Online Access: | https://hdl.handle.net/1721.1/126822 |
| _version_ | 1811087264560709632 |
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| author | Ordovas-Montanes, Jose Manuel Graham, Daniel B. Shalek, Alexander K Xavier, Ramnik Joseph Regev, Aviv |
| author2 | Massachusetts Institute of Technology. Department of Chemistry |
| author_facet | Massachusetts Institute of Technology. Department of Chemistry Ordovas-Montanes, Jose Manuel Graham, Daniel B. Shalek, Alexander K Xavier, Ramnik Joseph Regev, Aviv |
| author_sort | Ordovas-Montanes, Jose Manuel |
| collection | MIT |
| description | Genome-wide association studies (GWAS) have revealed risk alleles for ulcerative colitis (UC). To understand their cell type specificities and pathways of action, we generate an atlas of 366,650 cells from the colon mucosa of 18 UC patients and 12 healthy individuals, revealing 51 epithelial, stromal, and immune cell subsets, including BEST4⁺ enterocytes, microfold-like cells, and IL13RA2⁺IL11⁺ inflammatory fibroblasts, which we associate with resistance to anti-TNF treatment. Inflammatory fibroblasts, inflammatory monocytes, microfold-like cells, and T cells that co-express CD8 and IL-17 expand with disease, forming intercellular interaction hubs. Many UC risk genes are cell type specific and co-regulated within relatively few gene modules, suggesting convergence onto limited sets of cell types and pathways. Using this observation, we nominate and infer functions for specific risk genes across GWAS loci. Our work provides a framework for interrogating complex human diseases and mapping risk variants to cell types and pathways. |
| first_indexed | 2024-09-23T13:42:41Z |
| format | Article |
| id | mit-1721.1/126822 |
| institution | Massachusetts Institute of Technology |
| language | English |
| last_indexed | 2024-09-23T13:42:41Z |
| publishDate | 2020 |
| publisher | Elsevier BV |
| record_format | dspace |
| spelling | mit-1721.1/1268222022-10-01T16:41:43Z Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis Ordovas-Montanes, Jose Manuel Graham, Daniel B. Shalek, Alexander K Xavier, Ramnik Joseph Regev, Aviv Massachusetts Institute of Technology. Department of Chemistry Massachusetts Institute of Technology. Institute for Medical Engineering & Science Ragon Institute of MGH, MIT and Harvard Massachusetts Institute of Technology. Center for Microbiome Informatics and Therapeutics Massachusetts Institute of Technology. Department of Biology Koch Institute for Integrative Cancer Research at MIT Genome-wide association studies (GWAS) have revealed risk alleles for ulcerative colitis (UC). To understand their cell type specificities and pathways of action, we generate an atlas of 366,650 cells from the colon mucosa of 18 UC patients and 12 healthy individuals, revealing 51 epithelial, stromal, and immune cell subsets, including BEST4⁺ enterocytes, microfold-like cells, and IL13RA2⁺IL11⁺ inflammatory fibroblasts, which we associate with resistance to anti-TNF treatment. Inflammatory fibroblasts, inflammatory monocytes, microfold-like cells, and T cells that co-express CD8 and IL-17 expand with disease, forming intercellular interaction hubs. Many UC risk genes are cell type specific and co-regulated within relatively few gene modules, suggesting convergence onto limited sets of cell types and pathways. Using this observation, we nominate and infer functions for specific risk genes across GWAS loci. Our work provides a framework for interrogating complex human diseases and mapping risk variants to cell types and pathways. National Institutes of Health (U.S.) (Grant 5U24AI118672) 2020-08-26T17:28:41Z 2020-08-26T17:28:41Z 2019-07 2020-08-24T12:42:04Z Article http://purl.org/eprint/type/JournalArticle 0092-8674 https://hdl.handle.net/1721.1/126822 Smillie, Christopher S. et al. “Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis.” Cell, 178, 3 (July 2019): 714–730.e22 © 2019 The Author(s) en 10.1016/J.CELL.2019.06.029 Cell Creative Commons Attribution-NonCommercial-NoDerivs License http://creativecommons.org/licenses/by-nc-nd/4.0/ application/pdf Elsevier BV PMC |
| spellingShingle | Ordovas-Montanes, Jose Manuel Graham, Daniel B. Shalek, Alexander K Xavier, Ramnik Joseph Regev, Aviv Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis |
| title | Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis |
| title_full | Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis |
| title_fullStr | Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis |
| title_full_unstemmed | Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis |
| title_short | Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis |
| title_sort | intra and inter cellular rewiring of the human colon during ulcerative colitis |
| url | https://hdl.handle.net/1721.1/126822 |
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