Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Global profiling of prostate cancer cell expression upon treatment with media conditioned from human stromal cells ectopically expressing PDK4

ABSTRACT: Technical advances in next generation sequencing (NGS) has revolutionized system-based analysis of genome-wide expression, cellular pathways and responses. We performed this study to establish the transcriptomic profiles of human prostate cancer cell lines exposed to conditioned media from human primary stromal cells engineered to express pyruvate dehydrogenase kinase 4 (PDK4), a key enzyme that is correlated with glucose metabolism, negatively regulates the conversion of pyruvate to acetyl-CoA and plays important roles in cancer progression and multiple other pathological events.

ORGANISM(S): Homo sapiens

PROVIDER: GSE198110 | GEO | 2023/09/05

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Gene expression in activated WT or PDK4 -/- CD4+ T cells

Project description:Activation of CD4+ T cells requires metabolic reprograming to sustain demands of cellular building blocks and ATP. Pyruvate dehydrogenase kinase (PDK) is an enzyme regulating pyruvate dehydrogenase complex subunit alpha 1 (PDHE1-alpha), which converts pyruvate to acetyl-CoA. Gene expression analysis of TCR-stimulated CD4+ T cells with PDK4 deletion exhibited the reduced calcium signaling and aerobic glycolysis pathway.

2022-11-01 | GSE161653 | GEO

Cardiomyocyte Pdk4 response is associated with metabolic maladaptation in aging

Project description:Pyruvate Dehydrogenase Kinase 4 (Pdk4) is a pyruvate dehydrogenase inhibiton gene that strongly regulates metabolism. We studied the expression of Pdk4 in the young and aged mouse heart in both healthy conditions and after ischemic insult.

2023-01-31 | GSE213080 | GEO

Global profiling of prostate cancer cell expression upon treatment with media conditioned from human stromal cells ectopically expressing PDK4

Project description:Global profiling of prostate cancer cell expression upon treatment with media conditioned from human stromal cells ectopically expressing PDK4

| PRJNA813631 | ENA

Transcriptomic landscape of human primary stromal cells upon chemotherapeutic and/or PDK4-specific intervention

Project description:Cellular senescence is a response elicited by acute or chronic damage signals. In humans, senescent cells accumulate in multiple tissues at different rates, from 2- to 20-fold when comparing young (<35 years) to old (>65 years) healthy donors. The pathogenic role of cellular senescence in diverse age-related diseases can be largely explained by the senescence-associated secretory phenotype (SASP). Senescent cells display changes in mitochondrial activity with increased ATP production and high lactate production, which are partially correlated with upregulation of pyruvate dehydrogenase kinase 4 (PDK4), an inhibitor of mitochondrial pyruvate dehydrogenase. We used a genotoxic agent, bleomycin, and/or a PDK4-targeting chemical, PDK4-IN, to treat human primary stromal cells and determined the influence of PDK4 inhibition on the transcriptomic expression profile of senescent cells. The data allow to disclose the importance of PDK4 activity in development of senescence-associated phenotypes, particularly the SASP.

2023-09-05 | GSE222279 | GEO

Expression data from PDK4 overexpressing (Ad-PDK4 infected) and control (Ad-control infected) mouse liver

Project description:We identified PDK4 as a gene with adaptive transcriptional response to chemical stress. Although PDK4 is an energy resource regulator induced by starvation, expression of other fasting-inducible genes was unaffected, indicating additional physiological role of PDK4 for liver adaptation to the chemical stress. We used microarrays to determine genes with altered transcriptional level by PDK4 overexpression. Mice were infected with Ad-control (empty adenovirus vector) or Ad-PDK4 (PDK4 overexpressing adenovirus vector) at a dose of 10^9 PFU/mouse by tail vein injection. 3 days after the infection, mice were sacrificed for RNA preparation from the liver. Ad-control infected = 4, Ad-PDK4 infected = 3. Specimens from mice of each group were pooled, and 10 ug RNA from each pool was used for cRNA synthesis.

2010-12-25 | E-GEOD-22534 | biostudies-arrayexpress

Expression data from PDK4 overexpressing (Ad-PDK4 infected) and control (Ad-control infected) mouse liver

2010-12-25 | GSE22534 | GEO

STAT3-dependent systems-level analysis reveals PDK4 to be associated with favorable outcome in primary prostate cancer.

Project description:Prostate cancer has a broad spectrum of clinical behavior, hence biomarkers are urgently needed for risk stratification. We previously described the protective effect of signal transducer and activator of transcription 3 (STAT3) in a prostate cancer mouse model. We now show the importance of STAT3-regulated metabolic functions and explain their influence on aggressive prostate cancer. By utilizing a gene co-expression network in addition to laser microdissected proteomics from human and murine FFPE samples, we established a workflow that facilitates the discovery of new biomarkers. We thereby identified the protective effect of pyruvate dehydrogenase kinase 4 (PDK4) in prostate cancer. PDK4 is a key regulator of the citrate cycle and low PDK4 is significantly associated with disease recurrence.

2020-04-22 | PXD014251 | Pride

NRVM Conditioned Media Proteomics

Project description:Proteomic results from NRVM conditioned media overexpressing GRK2

2024-04-22 | PXD050356 | Pride

RNA-Sequencing of Astrocytes Stimulated with Activated Endothelial conditioned media (ECM) and Activated Microglia conditioned media (MCM)

Project description:The goal of this study is to compare the mRNA transcriptome of astrocytes treated with Activated Microglia and Endothelial conditioned media

2022-03-18 | GSE175485 | GEO

Pyruvate metabolism alters the epigenetic and transcriptional profile of bovine oocytes.

Project description:Pyruvate, the end-product of glycolysis in aerobic conditions, is converted into acetyl-CoA inside the mitochondria of oocytes as a master fuel input for the tricarboxylic acid (TCA) cycle. The citrate generated in the TCA cycle can be directed to the cytoplasm and converted back to acetyl-CoA, being driven to lipid synthesis or, alternatively, being used as the substrate for histones acetylation. This work aimed to verify the impact of pyruvate metabolism on the dynamics of lysine 9 histone 3 acetylation (H3K9ac) and RNA transcription in bovine oocytes during in vitro maturation (IVM). Bovine cumulus-oocyte complexes were subjected to IVM for 24 h considering three experimental groups: Control [IVM medium], sodium dichloroacetate [DCA, a stimulator of pyruvate oxidation into acetyl-CoA] or sodium iodoacetate [IA, a glycolysis inhibitor]. Our results show that both treatments change the metabolic profile of oocytes, stimulating the use of lipids for energy metabolism in the gamete. This leads to changes during IVM in the dynamics of H3K9ac, consequently impacting the oocyte transcriptional profile. A total of 148 and 356 differentially expressed genes were identified in DCA and IA oocyte groups, respectively, when compared to the control group. In summary, our results indicate that changes in the pyruvate metabolism induce the activation of metabolic pathways, such as lipid metabolism, and these metabolic alterations alter acetyl-CoA availability and H3K9ac levels at 24 h of IVM, consequently impacting the mRNA content of bovine oocytes.

2024-07-03 | GSE246306 | GEO

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