|
| Status |
Public on Oct 24, 2022 |
| Title |
Chi3l1 is a modulator of glioma stem cell states and a therapeutic vulnerability for glioblastoma [scRNA-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Chi3l1 (Chitinase 3-like 1) is a secreted protein highly expressed in glioblastoma. Here, we show that exposure of glioma stem cells (GSCs) to Chi3l1 reduces the CD133+/SOX2+ cells and increases the CD44+/Chi3l1+ cells. Single cell RNA-seq and RNA velocity following incubation of GSCs with Chi3l1 show significant changes in GSC state dynamics driving GSCs towards a mesenchymal expression profile and reducing transition probabilities towards terminal cellular states. ATAC-seq reveals that Chi3l1 increases accessibility of promoters containing MAZ transcription factor footprint. Inhibition of MAZ directly regulates genes with highest expression in cellular clusters exhibiting significant cell state transitions.
|
| |
|
| Overall design |
To determine the effect of Chi3l1 on GCSs at the single cell level, we applied single cell RNA-seq (scRNA-seq) on glioma stem cells (GSC1 and GSC2) treated with or without Chi3l1 for 7 days using the 10x Genomics Chromium platform.
|
| |
|
| Contributor(s) |
Tapinos N, Guetta-Terrier C, Karambizi D, Fajardo JE |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Sep 23, 2021 |
| Last update date |
Oct 26, 2022 |
| Contact name |
Jorge Eduardo Fajardo |
| E-mail(s) |
eduardo@fiserlab.org
|
| Organization name |
Albert Einstein College of Medicine
|
| Department |
Systems and Computational Biology
|
| Street address |
1300 Morris Park Avenue
|
| City |
Bronx |
| State/province |
NY |
| ZIP/Postal code |
10461 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
|
| Samples (4)
|
| GSM5595916 |
GSC1-Sample1: without Chi3l1 incubation (control) |
| GSM5595917 |
GSC1-Sample2: with Chi3l1 incubation |
| GSM5595918 |
GSC2-Sample1: without Chi3l1 incubation (control) |
|
| This SubSeries is part of SuperSeries: |
| GSE184698 |
Chi3l1 is a modulator of glioma stem cell states and a therapeutic vulnerability for glioblastoma |
|
| Relations |
| BioProject |
PRJNA765691 |
| SRA |
SRP338458 |
Less...
More...