Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-seq of glioma PDX treated with/without CNO

ABSTRACT: RNA-seq; glioma patient derived xenograft with upregulated M3Dq; comparison between CNO treatment and PBS

INSTRUMENT(S): NextSeq 550

ORGANISM(S): Homo sapiens

SUBMITTER: Kohei Kumegawa

PROVIDER: E-MTAB-16269 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

IL-2Rα-biased, but not βγ-biased, agonist reprograms tumor immune landscape and synergize with αPD-1 therapy

Project description:We investigated whether exogenous supplies of different IL-2R agonists (IL-2wt, IL-2nα or IL-2α-bias) at the concentration of 3 mg/g body weight could rescue the transcriptional signatures of dysfunctional T cells in large tumors, or allow them to regain sensitivity to αPD-1 antibody. Remarkably, after transient stimulation by IL-2wt, large tumors fully restored the effector/activation signatures observed in small tumors, such as upregulation of effector genes (Gzma, Gzmb, Gzmk and Ifng), T cell activation/exhaustion genes (Ctla4, Pdcd1, Lag3 and Havcr2), inflammatory cytokine/cytokine receptors (Il2ra, Il2rb, Il2rg and Il21r), and chemokines (Cxcl9, Cxcl10 and Ccl19) (Fig.7d). Surprisingly, although IL-2α-bias had >10-fold weaker in vitro activity than IL-2wt, and could only activate the small fraction of CD25-upregulated CD8+Teff cells, the transcriptional profiles were indistinguishable between IL-2wt and IL-2α-bias treated large tumors. In stark contrast, IL-2nα treatment showed no meaningful transcriptional changes in large tumors compared to untreated control. These results once again demonstrate the critical role of CD25 in transmitting IL-2 signaling to reprogram the tumor immune microenvironment.

2023-04-02 | E-MTAB-12372 | biostudies-arrayexpress

CUT&Tag of H3K27Ac of HCT26-1T: Control and GSK126

Project description:CUT&Tag for H3K27Ac; Colorectal cancer patient derived organoids, HCT26-1T; drug experiment of control vs GSK126.

2025-11-20 | E-MTAB-16203 | biostudies-arrayexpress

RNA-seq of mouse CD8+ T cells treated with 25-HC versus DMSO control

Project description:To investigate the mechanism by which 25-HC restricts cytotoxic T cell differentiation, we performed RNA-seq on 25-HC-treated CD8+ T cells.Total RNA was extracted from activated CD8+ T cells, treated with 250 nM 25-HC or DMSO, using TRIzol reagent.

2026-05-01 | E-MTAB-15837 | biostudies-arrayexpress

Whole transcriptome profiling of glioma tissue with PDX model

Project description:A mouse model of patient-derived glioma tissue was used to explore the relationship between transcriptome alterations and tissue stiffness.

2023-05-20 | GSE232158 | GEO

nuclear proteomics of glioma cells infected with an oncolytic adenovirus

Project description:Glioblastoma multiforme (GBM) is the most common and aggressive type of malignant glioma. Oncolytic adenoviruses are being modified to exploit the aberrant expression of proteins in tumor cells to enhance tumor tropism and glioma-selective replication. E1A mutant adenovirus Delta-24-RGD has shown favorable toxicity profile and remarkable efficacy in a first-in-human phase I clinical trial. However, the comprehensive modulation of glioma metabolism in response to Delta-24-RGD infection is poorly understood. Integrating mass spectrometry based-quantitative proteomics, physical and functional interaction data, and biochemical approaches, we conducted a cell-wide study of cytosolic, nuclear, and secreted glioma proteomes throughout the early time course of Delta-24-RGD infection.

2018-10-22 | PXD008023 | Pride

Modulation of glioma cell proteome by Delta-24-RGD adenovirus (48hpi)

Project description:Glioblastoma multiforme (GBM) is the most common and aggressive type of malignant glioma. Oncolytic adenoviruses are being modified to exploit the aberrant expression of proteins in tumor cells to enhance tumor tropism and glioma-selective replication. E1A mutant adenovirus Delta-24-RGD has shown favorable toxicity profile and remarkable efficacy in a first-in-human phase I clinical trial. However, the comprehensive modulation of glioma metabolism in response to Delta-24-RGD infection is poorly understood. Integrating mass spectrometry based-quantitative proteomics, physical and functional interaction data, and biochemical approaches, we conducted a cell-wide study of intracellular and secreted glioma proteomes at late stage of Delta-24-RGD infection, when prominent autophagy has been described.

2018-12-11 | PXD010256 | Pride

Modulation of glioma cell proteome by Delta-24-RGD adenovirus (24hpi)

Project description:Glioblastoma multiforme (GBM) is the most common and aggressive type of malignant glioma. Oncolytic adenoviruses are being modified to exploit the aberrant expression of proteins in tumor cells to enhance tumor tropism and glioma-selective replication. E1A mutant adenovirus Delta-24-RGD has shown favorable toxicity profile and remarkable efficacy in a first-in-human phase I clinical trial. However, the comprehensive modulation of glioma metabolism in response to Delta-24-RGD infection is poorly understood. Integrating mass spectrometry based-quantitative proteomics, physical and functional interaction data, and biochemical approaches, we conducted a cell-wide study of intracellular and secreted glioma proteomes at late stage of Delta-24-RGD infection, when prominent autophagy has been described.

2018-12-11 | PXD011580 | Pride

Mouse E11 WT and GATA2 heterozygous HSPCs

Project description:Transcriptome analysis from WT and Gata2 heterozygous mouse HSPCs at E11

2023-02-17 | E-MTAB-12571 | biostudies-arrayexpress

Transcriptional profiling of newly generated dentate granule cells using TU-tagging reveals pattern shifts in gene expression during circuit integration

Project description:We sequenced total 10 virus infected mouse hippocampus: 3 samples of lentivirus infected, 4 samples of 1st batch retrovirus infected as batch A, and 3 samples as batch B retrovirus infected. Examination of mRNA levels using TU-tagging approach that differ the newborn neurons from mature neurons.

2016-10-25 | E-GEOD-76587 | biostudies-arrayexpress

RNAseq of differentiation states of primary monocytes and THP-1 cells (from two depositors)

Project description:Intensive usage of cancer cell lines as cellular model system in cancer research caused the generation of variant subtypes during the last decades. This study focused on the human leukemic THP-1 cell line as a monocyte model. THP-1 cells from two different depositors were differentiated into various immune states. Additionally primary immune cells were differentiated into various immune states in order to be a comparative dataset.

2026-07-24 | E-MTAB-17225 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data