GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE207360 Query DataSets for GSE207360
Status Public on Mar 04, 2024
Title Mesenchymal glioma stem cells trigger vasectasia, a distinct neovascularization process mediated by extracellular vesicles carrying EGFR [scRNA-seq]
Organisms Homo sapiens; Mus musculus; synthetic construct
Experiment type Expression profiling by high throughput sequencing
Summary To investigate the functional role of EGFR in the formation of large vessels, we established a mesenchymal glioma stem cell line (GSC83) with intact EGFR and knocked down EGFR by Crispr-Cas9.
We then performed single cells gene expression profiling analysis using data obtained from RNA-seq of 2 different tumours, derived by injection of GSC83 WT or GSC83 KO in NSG mice. In addition, GSC83 WT or GSC83 KO tumours in NSG mice were subjected to spatial gene expression profiling in situ using GeoMX platform.

Overall design Comparative single cells gene expression profiling analysis of RNA-seq data for 83 wild type EGFR and its EGFR knockdown derivative (GSC83 WT vs. GSC83 KO).
For GeoMX spatial analysis, regions-of-interest were designated using anti-CD31 immunofluorescent tissue staining. Cells within/proximal to CD31-positive areas were profiled for mRNA expression.
Web link
Contributor(s) Spinelli C, Adnani L, Meehan B, Montermini L, Huang S, Kim M, Nishimura T, Croul SE, Nakano I, Riazalhosseini Y, Rak J
Citation(s) 38570528
Submission date Jul 01, 2022
Last update date Apr 05, 2024
Contact name Janusz Rak
Organization name McGill University
Department Department of Pediatrics
Lab Lab or Dr. Janusz Rak
Street address 1001 Decarie Blvd. Room E01.4366
City Montreal
State/province Quebec
ZIP/Postal code H4A 3J1
Country Canada
Platforms (3)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL25431 Illumina HiSeq 4000 (Homo sapiens; Mus musculus)
GPL26526 Illumina NovaSeq 6000 (synthetic construct)
Samples (45)
GSM6284971 Mesenchymal glioma stem cells with intact EGFR (scRNA-seq)
GSM6284972 Mesenchymal glioma stem cells with depleted EGFR (scRNA-seq)
GSM8120929 No Template Control (GeoMx)
BioProject PRJNA854923

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE207360_Human_Mouse_filtered.rds.gz 3.9 Gb (ftp)(http) RDS
GSE207360_Human_Mouse_unfiltered.rds.gz 19.3 Mb (ftp)(http) RDS
GSE207360_Mm_R_NGS_WTA_v1.0.pkc.gz 1.8 Mb (ftp)(http) PKC
GSE207360_Q3_5__Filtered.xlsx 3.8 Mb (ftp)(http) XLSX
GSE207360_RAW.tar 1.1 Gb (http)(custom) TAR (of DCC, TAR)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap