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MetabolomicsIntegrating two chromatographies in a co-fractionation mass spectrometry approach improved protein-metabolite interactions (PMIs) mapping capabilities and revealed novel protein-ligand pairings in Escherichia coli.
The protein-metabolite interactome remains understudied. We previously developed a co-fractionation mass-spectrometry-based approach called PROMIS to address this gap. PROMIS relies on size separation chromatography of protein-metabolite complexes from lysates, followed by proteomics and metabolomic...
2025-04-25 | MTBLS9098 | MetaboLights
MetabolomicsLow-Protein Diet Enhances Anti-Tumor Immunity in Pancreatic Cancer through Microbiota-Derived Uridine Diphosphate-Galactose
Low-protein diets (LPD) have been linked to improved metabolic health, but their role in pancreatic ductal adenocarcinoma (PDAC) immunotherapy remains unclear. Here we show that an LPD suppresses PDAC progression in male mice by remodeling the gut microbiota and activating anti-tumor immunity. LPD p...
2026-07-09 | MTBLS14989 | MetaboLights
ProteomicsAnalysis of circulating protein aggregates reveals pathological hallmarks of amyotrophic lateral sclerosis
the aim of the project is to characterise circulating protein aggregates and evaluate their protein composition in order to define new biomarkers of neurodegeneration in blood
ORGANISM(S): Homo sapiens (Human) 
2021-07-19 | PXD018938 | Pride
Brain Plasma Aggregates Neurodegeneration 
ModelsMasel2000 - Drugs to stop prion aggregates and other amyloids
Masel2000 - Drugs to stop prion aggregates and other amyloids Encoded non-curated model. Issues:  - Missing initial concentration for species y, yb and z - Not reproducible figures This model is described in the article: Designing drugs to stop the formation of prion aggregates an...
2015-04-15 | MODEL1410310000 | BioModels
ProteomicsAging-triggered iron-rich insoluble protein aggregates in the spleen originate chiefly from red pulp macrophages.
Both iron homeostasis and erythropoiesis are known to be affected by aging. Iron needs in mammals are met primarily by iron recycling from senescent red blood cells (RBCs), a task chiefly accomplished by red pulp macrophages (RPMs) in the spleen. Given that RPMs continuously process iron, their cell...
ORGANISM(S): Mus musculus (Mouse) 
2023-02-02 | PXD038660 | Pride
Iron-rich protein aggregates Iron-dextran injection Mouse Red pulp macrophages Spleen 
ProteomicsGeneration of aggregates of alpha-lactalbumin by UV-B light exposure
Whey proteins are widely used as ingredients in the form of aggregates to obtain certain functionalities in food applications. The aim of this study was to understand how UV illumination generates aggregates of alpha-lactalbumin (a-LA) as an alternative to heat treatments traditionally used for indu...
ORGANISM(S): Bos Taurus (ncbitaxon:9913) 
2019-12-16 | MSV000084695 | MassIVE
TranscriptomicsTranscriptome profile in the human synovial MSC-aggregates
One of strategies to regenerate cartilage defect is transplantation of mesenchymal stem cells (MSCs). Improvements of therapeutic potential of MSCs are needed to achieve successful cartilage regeneration by transplantation of a limited number of cells. Aggregated culture is a popular method in ES an...
ORGANISM(S): Homo sapiens 
2012-05-12 | E-GEOD-31980 | biostudies-arrayexpress
ProteomicsProtein composition of TGFBI-R124C and TGFBI-R555W associated aggregates suggests multiple mechanisms leading to Lattice and Granular corneal dystrophy
Transforming Growth Factor Beta-induced (TGFBI)-related dystrophies constitute the most common heritable forms of corneal dystrophy worldwide. However, other than the underlying genotypes of these conditions, a limited knowledge exists of the exact pathomechanisms of these disorders. This study expa...
ORGANISM(S): Homo sapiens (Human) 
2015-11-18 | PXD002236 | Pride
Granular corneal dystrophy Lattice corneal dystrophy Human cornea 
ProteomicsComposition and liquid-to-solid maturation of protein aggregates contribute to bacterial dormancy development and recovery
This study investigates the role of protein aggregation in bacterial dormancy in Escherichia coli (E. coli), with a focus on energy-related proteins. The research demonstrates how protein aggregation leads to ATP depletion and induces dormancy, with aggregates transitioning from liquid-like condensa...
ORGANISM(S): Escherichia coli 
2025-01-27 | PXD059868 | Pride
Bacterial dormancy/ protein aggregation/ energy depletion (atp)/ liquid-to-solid phase transition 
ProteomicsComposition and liquid-to-solid maturation of protein aggregates contribute to bacterial dormancy development and recovery
This study investigates the role of protein aggregation in bacterial dormancy in Escherichia coli (E. coli), with a focus on energy-related proteins. The research demonstrates how protein aggregation leads to ATP depletion and induces dormancy, with aggregates transitioning from liquid-like condensa...
ORGANISM(S): Escherichia coli 
2025-01-27 | PXD059817 | Pride
Bacterial dormancy/ protein aggregation/ energy depletion (atp)/ liquid-to-solid phase transition 
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