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| Status |
Public on Nov 19, 2024 |
| Title |
A longitudinal single-cell atlas of anti-tumour necrosis factor treatment in inflammatory bowel disease |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Precision medicine in immune-mediated inflammatory diseases (IMIDs) requires a cellular understanding of treatment response. We describe a therapeutic atlas for Crohn’s disease (CD) and ulcerative colitis (UC) following adalimumab, an anti-tumour necrosis factor (anti-TNF) treatment. We generated ~1 million single-cell transcriptomes, organised into 109 cell states, from 216 gut biopsies (41 subjects), revealing disease-specific differences. A systems biology-spatial analysis identified granuloma signatures in CD and interferon (IFN)-response signatures localising to T cell aggregates and epithelial damage in CD and UC. Pretreatment differences in epithelial and myeloid compartments were associated with remission outcomes in both diseases. Longitudinal comparisons demonstrated disease progression in nonremission: myeloid and T cell perturbations in CD and increased multi-cellular IFN signalling in UC. IFN signalling was also observed in rheumatoid arthritis (RA) synovium with a lymphoid pathotype. Our therapeutic atlas represents the largest cellular census of perturbation with the most common biologic treatment, anti-TNF, across multiple inflammatory diseases.
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| Overall design |
Longitudinal sampling of gut regions from patients with CD, UC undergoing adalimumab treatment (PMID: 39438660)
Please note that processed data tar archives contain the *h5 files (including the directories/path).
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| Web link |
https://www.nature.com/articles/s41590-024-01994-8
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| Contributor(s) |
Thomas T, Agarwal D, Uhlig H, Travis S, Dendrou C, Buckley C |
| Citation(s) |
39438660 |
| BioProject |
PRJNA1179412 |
| |
| Submission date |
Nov 17, 2024 |
| Last update date |
Nov 19, 2024 |
| Contact name |
Tom Thomas |
| Organization name |
University of Oxford
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| Street address |
Old Road Campus, Roosevelt Dr, Headington
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| City |
Oxford |
| ZIP/Postal code |
OX3 7FY |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (216)
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