|
| Status |
Public on Feb 08, 2023 |
| Title |
Birth and delineation of the intestinal stem cell niche |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Intestinal stem cells are sequestered into crypts generated during postnatal development in mice. During this timeframe, we investigated the transition of the surrounding mesenchymal niche. Using single cell RNA sequencing, we generated transcriptomic libraries from a combination of whole tissue and transgenically labeled fractions, including GFP+ fractions from PdgfraH2BEGFP and GFP-tDt+ fractions from PdgfraH2BEGFP;Myh11CreERT2;Rosa26tDt+ mice, of the intestinal mesenchyme at varying postnatal and adult stages. We found distinct molecular signatures of these cell types, focusing our analysis on the temporal changes and known epithelial trophic factors.
|
| |
|
| Overall design |
Examination of mRNA profiles of intestinal mesenchymal cell types.
|
| |
|
| Contributor(s) |
McCarthy N, Tie G, Madha S, Maglieri A, Kraiczy J, Shivdasani R |
| Citation(s) |
36924771 |
| |
| Submission date |
Sep 15, 2021 |
| Last update date |
May 12, 2023 |
| Contact name |
Ramesh Shivdasani |
| E-mail(s) |
ramesh_shivdasani@dfci.harvard.edu
|
| Organization name |
Dana Farber Cancer Institute
|
| Department |
Medical Oncology
|
| Lab |
Shivdasani
|
| Street address |
450 Brookline Ave. Dana 720D
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
|
| Samples (15)
|
| GSM5579367 |
P1-stage Whole Mesenchyme Single cell RNA-seq rep1 |
| GSM5579368 |
P1-stage Whole Mesenchyme Single cell RNA-seq rep2 |
| GSM5579369 |
P2-stage PdgfraEGFP Single Cell RNA-seq |
| GSM5579370 |
P4-stage Whole Mesenchyme Single Cell RNA seq |
| GSM5579371 |
P5-stage PdgfraEGFP Single Cell RNA-seq |
| GSM5579372 |
P5-stage Whole Mesenchyme Single Cell RNA seq rep1 |
| GSM5579373 |
P5-stage Whole Mesenchyme Single Cell RNA seq rep2 |
| GSM5579374 |
P9-stage Whole Mesenchyme Single Cell RNA seq rep1 |
| GSM5579375 |
P9-stage Whole Mesenchyme Single Cell RNA seq rep2 |
| GSM5579376 |
P9-stage Whole Mesenchyme Single Cell RNA seq rep3 |
| GSM5579377 |
P14-stage Whole Mesenchyme Single Cell RNA seq |
| GSM5579378 |
P14-stage PdgfraEGFP Single Cell RNA-seq rep1 |
| GSM5579379 |
P14-stage PdgfraEGFP Single Cell RNA-seq rep2 |
| GSM5579380 |
Adult colonic Myh11Cre+;PdgfraEGFP- single cell RNA seq |
| GSM5579381 |
Adult Small intestinal Myh11Cre+;PdgfraEGFP- single cell RNA seq |
|
| Relations |
| BioProject |
PRJNA763402 |
| SRA |
SRP337198 |
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