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| Status |
Public on Feb 23, 2021 |
| Title |
ScRNAseq of human IEL and LPL T lymphocytes |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We sequenced T cells from 2 control and 2 Crohn's disease patients
We determined that in human Th17 T cells are highly enriched in the IEL compartment
We identified discrete populations of CD8 and CD4 T cells, which are differently represented in IEL and LP
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| Overall design |
The IEL and LP compartments were separately extracted and T cells sorted and sequenced on the 10X genomics platform
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| Contributor(s) |
Jager N, Gamini R, Cella M, Schettini JL, Bugatti M, Zhao S, Rosadini CV, Esaulova E, Di Luccia B, Kinnet B, Vermi W, Artyomov MN, Wynn TA, Xavier RJ, Jelinsky SA, Colonna M |
| Citation(s) |
33771991 |
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| Submission date |
Sep 04, 2020 |
| Last update date |
Sep 16, 2021 |
| Contact name |
Ramya Gamini |
| Organization name |
Pfizer Inc.,
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| Street address |
1 Portland st
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| City |
Cambrdge |
| State/province |
MA |
| ZIP/Postal code |
02139139 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (11)
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| GSM4766839 |
normal LPL sample from colectomy patient donor 7420 |
| GSM4766840 |
normal LPL sample from colectomy patient donor 1425 |
| GSM4766841 |
inflammed LPL sample from CD donor 1813 |
| GSM4766842 |
non inflammed LPL sample from CD donor 1813 |
| GSM4766843 |
inflammed LPL sample from CD donor 1818 |
| GSM4766844 |
non inflammed LPL sample from CD donor 1818 |
| GSM4766845 |
normal IEL sample from colectomy patient donor 7420 |
| GSM4766846 |
normal IEL sample from colectomy patient donor 1425 |
| GSM4766847 |
inflammed IEL sample from CD donor 1813 |
| GSM4766848 |
non inflammed IEL samples from CD donor 1813 |
| GSM4766849 |
inflammed and non inflammed IEL sample from CD donor 1818 |
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| Relations |
| BioProject |
PRJNA661452 |
| SRA |
SRP280092 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE157477_RAW.tar |
204.3 Mb |
(http)(custom) |
TAR (of TAR) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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