Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Proteomics of extracellular vesicles from low vs high glucose

ABSTRACT: Fatty liver disease and insulin resistance are common comorbidities, highlighting the potential for the liver to secrete factors that influence glycemic control. We assessed the influence of low vs high glucose on liver secreted extracellular vesicle secretion and composition

INSTRUMENT(S): Orbitrap Eclipse

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Liver

SUBMITTER: Benjamin Parker

LAB HEAD: Benjamin Parker

PROVIDER: PXD043137 | Pride | 2023-12-19

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	230213_Paula_PM-5854_HG1.raw	Raw
	230213_Paula_PM-5854_HG2.raw	Raw
	230213_Paula_PM-5854_HG3.raw	Raw
	230213_Paula_PM-5854_HG4.raw	Raw
	230213_Paula_PM-5854_HG5.raw	Raw

Items per page:

1 - 5 of 12

Similar Datasets

Proteomics of extracellular vesicles from mouse liver

Project description:Fatty liver disease and insulin resistance are common comorbidities, highlighting the potential for the liver to secrete factors that influence glycemic control. We assessed the influence of progressive liver disease, including non-alcoholic steatosis and non-alcoholic steatohepatitis on liver secreted extracellular vesicle secretion and composition.

2023-12-19 | PXD037924 | Pride

Circadian cycling of genome-wide histone methylation

Project description:Daily (circadian) clocks are essential for regulating and coordinating physiology in mammals. Modulation of local chromatin structure has been shown for only a small number of genes, principally thought to be directly modulated by Clock-mediated histone acetylation. Here we show that genome-wide changes of active and suppressive histone marks control global chromatin architecture over the day and night. Examination of mouse liver tissue at 4 time-points around the clock in "free-running", continuous conditions (constant darkness, temperature and food available ad libitum).

2013-01-08 | E-GEOD-23550 | biostudies-arrayexpress

Establishment and Characterization of Turtle Liver Organoids Provides a Potential Model to Decode their Unique Adaptations

Project description:Raw proteomic dataset from liver-derived organoids associated with Zdyrski et al. 2024 Communications Biology article (https://doi.org/10.1038/s42003-024-05818-1) entitled "Establishment and Characterization of Turtle Liver Organoids Provides a Potential Model to Decode their Unique Adaptations". Files 05032023_1.raw, 05032023_1_r2.raw, and 05032023_1_r3.raw correspond to samples F1-F3 from Chelydra serpentina turtles as described in the text.

2024-01-30 | PXD048526 | Pride

Establishment and Characterization of Turtle Liver Organoids Provides a Potential Model to Decode their Unique Adaptations

Project description:Raw proteomic dataset from liver-derived organoids associated with Zdyrski et al. 2024 Communications Biology article (https://doi.org/10.1038/s42003-024-05818-1) entitled "Establishment and Characterization of Turtle Liver Organoids Provides a Potential Model to Decode their Unique Adaptations". Files 05032023_2.raw, 05032023_2_f2.raw, 05032023_2_f3.raw, ..... , 05032023_5_r3.raw correspond to samples F4-F15 from Chrysemys picta turtles, as described in the text.

2024-01-30 | PXD048455 | Pride

The low abundance plasma proteome reveals changes associ-ated with breast implant capsular contracture

Project description:Capsular contracture (CC) is one of the most common post-operative complication associated with breast-implant associated infections. The mechanisms that lead to CC remain poorly understood. Plasma is an ideal biospecimen for early proteomics biomarker discovery. However, as higher-abundant proteins mask signals from low-abundance proteins, the identification of novel or specific proteins as biomarkers for a particular disease has been hampered. Here, we employed depletion of high-abundance plasma proteins followed by Tandem Mass Tag (TMT)-based quantitative proteomics to compare 10 healthy control patients against 10 breast implant CC patients. A total of 450 proteins were identified from these samples, 43 of which were significantly (p < 0.05) identified in this study. Among them 16 proteins were significantly differentially expressed in which 5 proteins were upregulated and 11 downregulated in breast implant CC patients compared to healthy controls. GO enrichment analysis revealed that proteins related to cell, cellular processes and catalytic activity were highest in the cellular component, biological process, and molecular function categories, respectively. Further, pathway analysis revealed that inflammatory responses, focal adhesion, platelet activation, complement and coagulation cascades were enriched pathways. The differentially expressed proteins from TMT-based quantitative proteomics has the potential to provide important information for future mechanistic studies and in the development of breast implant CC biomarkers

2024-10-17 | PXD044649 | Pride

Expression data from transfection of U87 glioma cells with miR-376a* for 72 hours

Project description:Several biological pathways can be under the regulation of miRNAs. These pathways can be indentified by the enforced expression of a miRNA and analysing the expression data for enrichment of specific pathways represented among the genes differentially expressed upon miRNA overexpression. We transfected unedited miR-376a* (376a*A) and edited miR-376a* (376a*G) into U87 cells to identify differentially regulated transcripts. List of differentially expressed genes were subject to pathway enrichment analysis to identify specific biological processes regulated by each of miR-376a*A and miR-376a*G. U87 cells (100,000) were transfected with 50 nM of miR-376a*A, miR-376a*G or miR-control. Following incubation for 72 hours, total RNA was isolated from transfected cells. For each (miR-376a*A or miR-376a*G), genes differentially expressed upon miRNA transfection were determined based on comparison with miR-control-transfected samples. Biological triplicates were used for each sample type.

2012-05-31 | E-GEOD-34456 | biostudies-arrayexpress

Expression data from transfection of SW1783 glioma cells with microRNA-376a* for 24 hours

Project description:Enforced expression of miRNAs in cells leads to down-regulation of several mRNAs which harbour binding sites in their 3'UTRs for the overexpressed miRNA and represent potential target genes of the miRNA We transfected unedited miR-376a* (376a*A) and edited miR-376a* (376a*G) into SW1783 cells to identify transcripts down-regulated by each in comparison to control miRNA transfection. The aim was to identify target genes subject to direct regulation by miR-376a*A and by miR-376a*G. SW1783 cells (100,000) were transfected with 50 nM of miR-376a*A, miR-376a*G or miR-control. Following incubation for 24 hours, total RNA was isolated from transfected cells. For each (miR-376a*A or miR-376a*G), genes differentially expressed upon miRNA transfection were determined based on comparison with miR-control-transfected samples. Biological triplicates were used for each sample type.

2012-05-31 | E-GEOD-34454 | biostudies-arrayexpress

Expression data from transfection of U87 glioma cells with miR-376a* for 24 hours

Project description:Enforced expression of miRNAs in cells leads to down-regulation of several mRNAs, which harbour binding sites in their 3'UTRs for the overexpressed miRNA and represent potential target genes of the miRNA We transfected unedited miR-376a* (376a*A) and edited miR-376a* (376a*G) into U87 cells to identify transcripts down-regulated by each in comparison to control miRNA transfection. The aim was to identify target genes directly subject to regulation by miR-376a*A and by miR-376a*G U87 cells (100,000) were transfected with 50 nM of miR-376a*A, miR-376a*G or miR-control. Following incubation for 24 hours, total RNA was isolated from transfected cells. For each (miR-376a*A or miR-376a*G), genes differentially expressed upon miRNA transfection were determined based on comparison with miR-control-transfected samples. Biological triplicates were used for each sample type.

2012-05-31 | E-GEOD-34455 | biostudies-arrayexpress

Proteome Landscape of Early Stage Hepatocellular Carcinoma Identifies Proteomic Subtypes and New Therapeutic Targets

Project description:Hepatocellular carcinoma (HCC) accounts for approximately 90% of primary liver cancers, the second leading cause of cancer mortality worldwide. Although HCC surgical treatment may be curative in the early stages, its five-year overall survival is only 50-70%. Advances in proteomic technologies have expanded the breadth and depth of cancer proteome characterization. Here, we present the largest characterization effort on proteomic profiling of 222 tumor and paired non-tumor tissues in clinically early HCC (Barcelona Clinic Liver Cancer (BCLC) stage 0 and A). Quantitative proteomic data identified three more-refined subtypes in the early- stage cohort of HCC (termed S-I, S-II and S-III) with different clinical outcomes. S-I retained hepatic detoxification and metabolic functions with the best prognosis, S-II increased molecular expression related to proliferation, and S-III showed distinct enrichment of tumor metastasis and immune response pathways and the poorest prognosis. The subtype specific signatures targeted by known FDA approved drugs or inhibitors under clinical investigations for HCC provide a novel resource for HCC therapeutic targets. A new mechanism of disrupted cholesterol homeostasis with aberrant accumulation of cholesteryl esters was also highlighted in S-III. Thus, this study represents the first proteomic stratification of early-stage HCC, providing insights into tumor biology and personalized targeted therapy.

2019-05-29 | PXD006512 | Pride

Expression data from transfection of SW1783 and U87 glioma cells with miR-376a* for 24 and 72 hours

Project description:This SuperSeries is composed of the following subset Series: GSE34454: Expression data from transfection of SW1783 glioma cells with microRNA-376a* for 24 hours GSE34455: Expression data from transfection of U87 glioma cells with miR-376a* for 24 hours GSE34456: Expression data from transfection of U87 glioma cells with miR-376a* for 72 hours Refer to individual Series

2012-05-31 | E-GEOD-34482 | 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