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Status |
Public on Aug 02, 2024 |
Title |
Mucosal Single-Cell Profiling of Crohn's-Like Disease of the Pouch Reveals Unique Pathogenesis and Therapeutic Targets |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by high throughput sequencing Other
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Summary |
The pathophysiology of Crohn’s-like disease of the pouch (CDP) that develops after restorative proctocolectomy with ileal pouch-anal anastomosis (IPAA) for ulcerative colitis (UC) is unknown. We examined mucosal cells from patients with and without CDP using single cell analyses.
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Overall design |
Endoscopic samples were collected from the pouch body and pre-pouch ileum (refer to as “pouch/ileum”) of 50 patients with an IPAA. Single-cell RNA sequencing (scRNA-seq) was performed on pouch/ileal tissues of patients with normal pouch/ileum and CDP. Mass cytometry was performed on mucosal immune cells from patients with normal pouch/ileum, CDP, pouchitis, as well as those with familial adenomatous polyposis (FAP) after pouch formation. Findings were independently validated using immunohistochemistry.
*************************************************************** Submitter states that missing raw files are due to patient privacy concerns. ***************************************************************
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Contributor(s) |
Cao S, Nguyen K, Colonna M |
Citation(s) |
39084267 |
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Submission date |
Nov 03, 2023 |
Last update date |
Aug 03, 2024 |
Contact name |
Khai Nguyen |
E-mail(s) |
k.m.nguyen@wustl.edu
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Organization name |
Washington University in St. Louis
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Department |
Pathology & Immunology
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Lab |
Marco Colonna
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Street address |
425 South Euclid Ave, 8107, 8th floor BJCIH,
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City |
Saint Louis |
State/province |
MO |
ZIP/Postal code |
63112 |
Country |
USA |
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Platforms (1) |
GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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Samples (59)
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GSM7881811 |
ileum_ctrl2, scRNA-seq |
GSM7881812 |
pouch_ctrl3, scRNA-seq |
GSM7881813 |
ileum_ctrl3, scRNA-seq |
GSM7881814 |
pouch_ctrl4, scRNA-seq |
GSM7881815 |
ileum_ctrl4, scRNA-seq |
GSM7881816 |
pouch_ctrl5, scRNA-seq |
GSM7881817 |
ileum_ctrl5, scRNA-seq |
GSM7881818 |
pouch_cdp1, scRNA-seq |
GSM7881819 |
ileum_cdp1, scRNA-seq |
GSM7881820 |
pouch_cdp2, scRNA-seq |
GSM7881821 |
ileum_cdp2, scRNA-seq |
GSM7881822 |
pouch_cdp3, scRNA-seq |
GSM7881823 |
ileum_cdp3, scRNA-seq |
GSM7881824 |
pouch_cdp4, scRNA-seq |
GSM7881825 |
ileum_cdp4, scRNA-seq |
GSM7881826 |
pouch_cdp5, scRNA-seq |
GSM7881827 |
ileum_cdp5, scRNA-seq |
GSM7881828 |
pouch_cdp6, scRNA-seq |
GSM7881829 |
ileum_cdp6, scRNA-seq |
GSM7881830 |
pouch_ctrl1, scTCR-seq |
GSM7881831 |
ileum_ctrl2, scTCR-seq |
GSM7881832 |
pouch_ctrl3, scTCR-seq |
GSM7881833 |
ileum_ctrl3, scTCR-seq |
GSM7881834 |
pouch_ctrl4, scTCR-seq |
GSM7881835 |
ileum_ctrl4, scTCR-seq |
GSM7881836 |
pouch_ctrl5, scTCR-seq |
GSM7881837 |
ileum_ctrl5, scTCR-seq |
GSM7881838 |
pouch_cdp1, scTCR-seq |
GSM7881839 |
ileum_cdp1, scTCR-seq |
GSM7881840 |
pouch_cdp2, scTCR-seq |
GSM7881841 |
ileum_cdp2, scTCR-seq |
GSM7881842 |
pouch_cdp3, scTCR-seq |
GSM7881843 |
ileum_cdp3, scTCR-seq |
GSM7881844 |
pouch_cdp4, scTCR-seq |
GSM7881845 |
ileum_cdp4, scTCR-seq |
GSM7881846 |
pouch_cdp5, scTCR-seq |
GSM7881847 |
ileum_cdp5, scTCR-seq |
GSM7881848 |
pouch_cdp6, scTCR-seq |
GSM7881849 |
ileum_cdp6, scTCR-seq |
GSM7881850 |
ileum_ctrl1, scBCR-seq |
GSM7881851 |
pouch_ctrl2, scBCR-seq |
GSM7881852 |
ileum_ctrl2, scBCR-seq |
GSM7881853 |
pouch_ctrl3, scBCR-seq |
GSM7881854 |
ileum_ctrl3, scBCR-seq |
GSM7881855 |
pouch_ctrl4, scBCR-seq |
GSM7881856 |
ileum_ctrl4, scBCR-seq |
GSM7881857 |
pouch_ctrl5, scBCR-seq |
GSM7881858 |
ileum_ctrl5, scBCR-seq |
GSM7881859 |
pouch_cdp1, scBCR-seq |
GSM7881860 |
ileum_cdp1, scBCR-seq |
GSM7881861 |
pouch_cdp3, scBCR-seq |
GSM7881862 |
ileum_cdp3, scBCR-seq |
GSM7881863 |
pouch_cdp4, scBCR-seq |
GSM7881864 |
ileum_cdp4, scBCR-seq |
GSM7881865 |
pouch_cdp5, scBCR-seq |
GSM7881866 |
ileum_cdp5, scBCR-seq |
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Relations |
BioProject |
PRJNA1035495 |
Supplementary file |
Size |
Download |
File type/resource |
GSE246987_RAW.tar |
1.9 Gb |
(http)(custom) |
TAR (of CSV, MTX, TSV) |
GSE246987_counts.txt.gz |
373.4 Mb |
(ftp)(http) |
TXT |
GSE246987_metadata.txt.gz |
1.1 Mb |
(ftp)(http) |
TXT |
Raw data not provided for this record |
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