Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ScRNA-Seq of Fresh Mouse Glioblastoma Cells and Mouse Glioblastoma Cell line

ABSTRACT: ScRNA-Seq of Fresh Mouse Glioblastoma Cells and Mouse Glioblastoma Cell line

PROVIDER: PRJNA664205 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12664205_1.fastq.gz	Fastqsanger.gz
	SRR12664205_2.fastq.gz	Fastqsanger.gz
	SRR12664206_1.fastq.gz	Fastqsanger.gz
	SRR12664206_2.fastq.gz	Fastqsanger.gz
	SRR12664207_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

ScRNA-Seq of Fresh Mouse Glioblastoma Cells and Mouse Glioblastoma Cell line

Project description:Methods: In our study, we added tdTomato gene inherent in our mouse model gene list to obtain the final matrics by modifying the reference genome. Finally, we separated the matrix by the cell type judgment result obtained by the cellranger. Cells with high quality were selected with the following criteria: (1) Genes detected in < 3 cells were removed; (2) Cells with unique molecular identified (UMI) ≤ 150 or ≥ 4500 were removed. (3) Cells with ≥ 20% mitochondrial counts were removed. Results: scRNA-seq for the cells dissociated from a CKO_NG2-CreER tumor (Figure 1B) identified 12 distinct clusters, visualized using t-distributed stochastic neighbor embedding (t-SNE). Referring to known cellular markers in the brain 24, we could identify the cell identities/states of 10 clusters, including two for OPCs (C5 and C7), two for microglia (C1 and C4), one each for astrocytes (C2), endothelial cells (C3), oligodendrocytes (C6), pericytes (C9), neurons (C11) and T/dendritic cells (C12). Projection of lineage marker tdTomato onto the t-SNE map further revealed that 4 clusters (C2, C6, C7 and C9) were likely derived from NG2-CreER labeled cells and/or their progeny Conclusions: scRNA-seq suggests that tumor OPCs in adult OPC-originated gliomas may function as TICs given their strong stemness feature.

2020-09-18 | GSE158175 | GEO

PDGF-driven glioblastoma mouse model scRNA-Seq

Project description:Generate scRNA-Seq profiles for PDGF-driven glioblastoma mouse model.

2018-02-23 | GSE95157 | GEO

scRNA-Seq analysis of adult glioblastoma patient samples

Project description:Glioblastoma is the most common type of malignant brain tumor among adults. We used single-cell RNA sequencing (scRNA-seq) to analyze the diversity of glioblastoma cells.

2024-07-25 | GSE214966 | GEO

Whole genome bisulfite sequencing and Infinium Mouse Methylation BeadChip using fresh and fresh-frozen mouse epidermis (WGBS)

Project description:We compared the global DNA methylation levels of hairless mouse epidermis using the Infinium Mouse Methylation BeadChip from Illumina and whole genome bisulfite sequencing (WGBS). We also studied the effect of sample storage conditions by using fresh and fresh-frozen epidermis. The DNA methylation levels of xxx,xxx CpG sites covered by both the BeadChip and WGBS were compared. DNA methylation levels obtained with WGBS and the BeadChip were strongly correlated (Pearson correlation r = 0.984). We applied a threshold of 15 reads for the WGBS methylation analysis. Even at a threshold of 10 reads, we observed no substantial difference in DNA methylation levels compared with that obtained with the BeadChip. The DNA methylation levels from the fresh and the fresh-frozen samples were strongly correlated when analysed with both the BeadChip (r = 0.996) and WGBS (r = 0.994). We conclude that the two methods of analysis generally work equally well for studies of DNA methylation of mouse epidermis and find that fresh and fresh-frozen epidermis can generally be used equally well. The choice of method will depend on the specific study’s aims and the available resources in the laboratory.

2022-09-23 | GSE213747 | GEO

Human Glioblastoma Cell Line Secretome LC-MS/MS

Project description:To investigate the effect of glioblastoma secretome in activating tau pathology, Glioblastoma cell line secretome were prefractionated with gel filtration chromatography. Secretome analyzed by LC-MS/MS and identified targets using PSM count quantitation.

2018-07-16 | PXD007969 | Pride

Proteomic profiling of glioblastoma stem cells, human astrocyte, and T98G glioblastoma cell line

Project description:With HiRIEF LC-MS/MS shotgun proteomics, we analysed 6 patient-derived glioblastoma stem cells (BT stem cells) and compared them to an astrocyte line (CliniSciences, Guidonia Montecelio, Italy) and a more differentiated glioblastoma cell line (T98G). Each of the 8 cell line sample was run in triplicates in a total of three TMT10 sets, assigning each replicate in a separate TMT10 set, using 2 internal standards per set. The three TMT10 sets were ran in two experiments, first on immobilized pH gradient (IPG) 3-10 isoelectric focusing (IEF) strips, and then on IPG 3.7-4.9 IEF strips.

2022-12-23 | PXD027335 | Pride

Single cell RNA sequencing of KPC1199 cell line [mouse scRNA-seq]

Project description:Single cell RNA sequencing of KPC1199 cell line [mouse scRNA-seq]

| PRJNA528899 | ENA

Establishment of radioresistant U87MG glioblastoma cell line

Project description:Establishment of radioresistant U87MG glioblastoma cell line

| PRJNA853300 | ENA

Pharmacogenomic interactions in Glioblastoma cell line models

Project description:Pharmacogenomic interactions in Glioblastoma cell line models

| PRJNA526265 | ENA

Pharmacogenomic interactions in Glioblastoma cell line models

Project description:Pharmacogenomic interactions in Glioblastoma cell line models