 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Apr 02, 2018 |
| Title |
Chemically Induced Paneth Cells Provide Superior In Vivo Mimic to Organoid-derived Analog |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Paneth cells (PCs) are post-mitotic secretory cells of the small intestine that produce antimicrobials, growth factors, and cytokines. Multiple diseases have been linked to alterations in PC function. Past studies of PCs have relied on in vivo models, and limited in vitro models, including organoids. While useful, whether the in vitro models recapitulate in vivo biology is an important, yet unanswered question. Here, we present a bona fide in vitro PC-enriched population derived via chemically-induced (CI) differentiation of primary murine adult stem cells. We define the identity of PCs in our system and compare to PCs of established organoid systems and those found in vivo. Importantly, we demonstrate stimulant-induced and microbe-responsive antimicrobial function of our CI-PCs – hallmark functions of PCs in vivo. Thus, we define and produce the most physiologically-relevant in vitro PC population to date, providing a superior tool to study cellular development, host-microbe interactions, and inflammatory disease.
|
| |
|
| Overall design |
Single-cell RNA sequencing experiments on Seq-Well platform of ENR (Control), ENR+CD (Paneth enriched), and ENR+CV (ISC-enriched) organoids.
Org_All_merged.txt: merged UMI file
|
| |
|
| Contributor(s) |
Ordovas-Montanes J, Shalek AK |
| Citation(s) |
29871632 |
| |
| Submission date |
Jun 20, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Jose Ordovas-Montanes |
| E-mail(s) |
jordovas@mit.edu
|
| Organization name |
Massachusetts Institute of Technology
|
| Department |
IMES
|
| Lab |
Shalek Lab
|
| Street address |
77 Massachusetts Ave
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (3) |
|
| Relations |
| BioProject |
PRJNA391194 |
| SRA |
SRP109858 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE100274_GEO_Merge_Script.R.gz |
847 b |
(ftp)(http) |
R |
| GSE100274_Org_All_merged.txt.gz |
8.6 Mb |
(ftp)(http) |
TXT |
| GSE100274_RAW.tar |
40.2 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
|
|
|
|
 |
