|
| Status |
Public on Feb 27, 2019 |
| Title |
Colonic single epithelial cell census reveals goblet cell drivers of barrier breakdown in inflammatory bowel disease |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We report the results of 3 single cell RNA-sequencing (10x, chromium) experiments looking to characterise the composition of the intestinal epithelial cells in health and Ulcerative Colitis in order to identify drivers of intestinal inflammation at the molecular level. The data in this submission comprises of 3 repeat experiments (A, B, C) with biopsy samples taken from colonic biopsies collected from healthy patients (Healthy) and those with UC inflammation from an inflamed area of colon and adjacent non-inflamed area. All biopsies underwent and epithelial cell isolation protocol by digestion and then were loaded onto the 10x single cell RNA sequencing platform with subsequent GEM generation, cDNA isolation, amplification and library construction into one library using illumina barcodes. A single library was then sequenced on a NovaSeq 6000
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| |
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| Overall design |
single cell RNA-sequencing on intestinal epitehlial cells from healthy controls and Ulcerative colitis
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| |
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| Contributor(s) |
Parikh K, Antanaviciute A, Fawkner-Corbett D, Jagielowicz M, Kinchen J, Aulicino A, Ashley N, Johnson E, Hublitz P, Bao L, Andev RS, Bjorkland E, Koohy H, Simmons A |
| Citation(s) |
30814735 |
| Submission date |
Jun 25, 2018 |
| Last update date |
Mar 04, 2019 |
| Contact name |
Alison Simmons |
| E-mail(s) |
alison.simmons@ndm.ox.ac.uk
|
| Organization name |
University of Oxford
|
| Department |
The MRC Weatherall Institute of Molecular Medicine
|
| Street address |
John Radcliffe Hospital/Headley Way
|
| City |
Oxford |
| ZIP/Postal code |
OX3 9DS |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
|
| Samples (9)
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| Relations |
| BioProject |
PRJNA477814 |
| SRA |
SRP151260 |
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