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| Status |
Public on Dec 28, 2022 |
| Title |
Small intestine and colon tissue-resident memory CD8+ T cells exhibit transcriptional, epigenetic, and functional heterogeneity in concert with differential dependence on Eomesodermin [CITE-seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Other
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| Summary |
Tissue-resident memory CD8+T (TRM) cells are a distinct component of the memory T cell armamentarium found in many tissues. Recent studies have shown disparities among TRM cells across tissues, but it is unknown whether there is heterogeneity among TRM cells from differentanatomic compartments of the small intestine and colon. Herewe show that intestinal TRM cells exhibit distinctive patterns of cytokine and granzyme expression, along with substantial transcriptional, epigenetic, and functional heterogeneity. We elucidate unexpected tissue- and context-specific regulatory roles for the T-box transcription factor Eomesodermin (Eomes), previously described to repressskin, liver, and kidney TRM cell formation, in promoting the maintenance of established TRM cells in the small intestine, but not in the colon. Taken together, these data provide previously unappreciated insights into the heterogeneity and differential requirements for the formation vs. maintenance of TRMcells from the small intestine and colon.
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| Overall design |
Performed CITE-seq to unterstand look at heterogeneity
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| Contributor(s) |
Lin YH, Duong HG, Limary AE, Kim ES, Hsu P, Patel SA, Wong WH, Indralingam CS, Liu YC, Yao P, Chiang NR, Anderson TR, Vandenburgh SA, Olvera JG, Ferry A, Takehara KK, Jin W, Yeo GW, Tsai MS, Goldrath AW, Chang J |
| Citation(s) |
36580919 |
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| Submission date |
Jun 12, 2022 |
| Last update date |
Mar 30, 2023 |
| Contact name |
John Chang |
| E-mail(s) |
jtc007@health.ucsd.edu
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| Organization name |
UC San Diego Health
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| Street address |
200 W Arbor Dr
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| City |
San Diego |
| State/province |
CA |
| ZIP/Postal code |
92103 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (16)
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| This SubSeries is part of SuperSeries: |
| GSE205942 |
Small intestine and colon tissue-resident memory CD8+ T cells exhibit transcriptional, epigenetic, and functional heterogeneity in concert with differential dependence on Eomesodermin |
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| Relations |
| BioProject |
PRJNA848395 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE205941_3_19_NE_CIEL_CD45_1_2_barcodes.tsv.gz |
1.4 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_CIEL_CD45_1_2_features.tsv.gz |
245.1 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_CIEL_CD45_1_2_matrix.mtx.gz |
769.8 Kb |
(ftp)(http) |
MTX |
| GSE205941_3_19_NE_CIEL_CD45_1_barcodes.tsv.gz |
1.0 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_CIEL_CD45_1_features.tsv.gz |
245.1 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_CIEL_CD45_1_matrix.mtx.gz |
670.0 Kb |
(ftp)(http) |
MTX |
| GSE205941_3_19_NE_CLPL_CD45_1_2_barcodes.tsv.gz |
2.6 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_CLPL_CD45_1_2_features.tsv.gz |
245.1 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_CLPL_CD45_1_2_matrix.mtx.gz |
852.4 Kb |
(ftp)(http) |
MTX |
| GSE205941_3_19_NE_CLPL_CD45_1_barcodes.tsv.gz |
1.7 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_CLPL_CD45_1_features.tsv.gz |
245.1 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_CLPL_CD45_1_matrix.mtx.gz |
610.7 Kb |
(ftp)(http) |
MTX |
| GSE205941_3_19_NE_SIIEL_CD45_1_2_barcodes.tsv.gz |
25.6 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_SIIEL_CD45_1_2_features.tsv.gz |
245.1 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_SIIEL_CD45_1_2_matrix.mtx.gz |
14.0 Mb |
(ftp)(http) |
MTX |
| GSE205941_3_19_NE_SIIEL_CD45_1_barcodes.tsv.gz |
32.8 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_SIIEL_CD45_1_features.tsv.gz |
245.1 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_SIIEL_CD45_1_matrix.mtx.gz |
19.6 Mb |
(ftp)(http) |
MTX |
| GSE205941_3_19_NE_SILPL_CD45_1_2_barcodes.tsv.gz |
3.3 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_SILPL_CD45_1_2_features.tsv.gz |
245.1 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_SILPL_CD45_1_2_matrix.mtx.gz |
785.2 Kb |
(ftp)(http) |
MTX |
| GSE205941_3_19_NE_SILPL_CD45_1_barcodes.tsv.gz |
11.5 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_SILPL_CD45_1_features.tsv.gz |
245.1 Kb |
(ftp)(http) |
TSV |
| GSE205941_3_19_NE_SILPL_CD45_1_matrix.mtx.gz |
5.8 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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