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ProteomicsChanges in the human platelet protein ubiquitylation landscape following GPVI activation
Platelet activators stimulate post-translational modification of signalling proteins to change their activity or their molecular interactions leading to signal propagation. One covalent modification is attachment of the small protein ubiquitin to lysine residues in target proteins. Modification by u...
ORGANISM(S): Homo sapiens (Human) 
2019-01-07 | PXD009072 | Pride
Proteomics Platelet activation Mass spectrometry Ubiquitome Syk Ubiquitin 
ProteomicsUSP32 regulates late endosomal transport and recycling through deubiquitylation of Rab7
The endosomal system is a highly dynamic multifunctional organelle, whose complexity is regulated in part by reversible ubiquitylation. Despite the wide-ranging influence of ubiquitin in endosomal processes, relatively few enzymes utilizing ubiquitin have been described to control endosome integrity...
ORGANISM(S): Homo sapiens (Human) 
2019-03-20 | PXD011899 | Pride
Endosomal trafficking Ubiquitin specific protease Ubiquitin Usp32 Rab gtpase 
ProteomicsUrine recirculation prolongs normothermic kidney perfusion for via more optimal metabolic homeostasis – a proteomics study
We describe a proteomics analysis to determine the molecular differences between normothermically perfused (normothermic machine perfusion, NMP) human kidneys with urine recirculation (URC) and urine replacement (UR). Proteins were extracted from 16 kidney biopsies with URC (n=8 donors after brain d...
ORGANISM(S): Homo sapiens (Human) 
2020-10-20 | PXD021507 | Pride
Proteomics Mass spectrometry Nephrology Kidney transplantation Ischemia reperfusion injury Organ perfusion Iri 
ProteomicsActivity-based profiling of deubiquitylating enzymes
This set is a repackaging of PXD031848 (described in https://doi.org/10.3390/ijms23063263: "ABPP-HT*-Deep Meets Fast for Activity-Based Profiling of Deubiquitylating Enzymes Using Advanced DIA Mass Spectrometry Methods") to make each LC-MS/MS experiment individually downloadable and to include TIMSC...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-07-24 | MSV000095426 | MassIVE
ProteomicsAn optimised method for CSF extracellular vesicle extraction and comparative proteomic analysis
Extracellular vesicles (EVs) are implicated in the pathogenesis of neurodegenerative diseases and offer a source of biomarkers for diagnostic, stratification and therapeutic monitoring purposes. A major limitation in the development of specific biomarkers based on cerebrospinal fluid (CSF) EVs is t...
ORGANISM(S): Homo sapiens (Human) 
2018-11-30 | PXD006353 | Pride
Cerebrospinal fluid Extracellular vesicles Lc-ms/ms 
ProteomicsDeacetylation inhibition reverses PABPN1-dependent muscle wasting
Reduced PABPN1 levels cause aging-associated muscle wasting. PABPN1 is a multi-functional regulator of mRNA processing. To elucidate the molecular mechanisms causing PABPN1-mediated muscle wasting, we compared the transcriptome to the proteome in mouse muscles expressing shRNA to PABPN1 (shPab). We ...
ORGANISM(S): Mus musculus (Mouse) 
2022-02-28 | PXD011534 | Pride
Mrna processing Muscle wasting Muscle proteome Sirt1 Muscle transcriptome Deacetylation 
ProteomicsA linear diubiquitin-based probe for efficient and selective detection of the deubiquitinating enzyme OTULIN
The methionine1 (M1)-specific deubiquitinase OTULIN acts as a negative regulator of NF-ΚB signaling and immune homeostasis. By replacing G76 in distal ubiquitin by dehydroalanine we designed the diubiquitin (diUb) probe UbG76Dha-Ub (OTULIN ABP) that couples to the catalytic site of OTULIN and thereb...
ORGANISM(S): Homo sapiens (Human) 
2017-09-19 | PXD006868 | Pride
Human Otulin 
ProteomicsSubclinical effects of remote ischaemic conditioning in human kidney transplants revealed by quantitative proteomics
Background: Remote ischaemic conditioning (RIC) is currently being explored as a non-invasive method to attenuate ischaemia/reperfusion injuries in organs. A randomised clinical study (CONTEXT) evaluated the effects of RIC compared to non-RIC controls in human kidney transplants. Methods: RIC was i...
ORGANISM(S): Homo sapiens (Human) 
2021-09-09 | PXD019284 | Pride
Remote ischaemic conditioning Kidney Quantitative proteomics 
ProteomicsUSP18-dependent muscle proteome
USP18 is an interferon type 1 (IFN-1) induced gene that negatively regulates the IFN-1 signalling pathway, which plays a role in many immune related pathologies. Dermatomyositis (DM) is characterised by excessive IFN-1 immune response and muscle degeneration. We found USP18 to be expressed in DM myo...
ORGANISM(S): Homo sapiens (Human) 
2023-05-10 | PXD032406 | Pride
Myogenesis Muscle cell differentiation Dermatomyositis Usp18 Skeletal muscle 
ProteomicsFbxl13 regulates centrosome homeostasis and migration through ubiquitin mediated proteolysis
F-box proteins are the variable substrate adaptor subunits of the SCF (Skp1, Cul1, F-box) ubiquitin ligases. The family comprise about 69 members with important roles in cancer pathogenesis and cell proliferation. Among the F-box proteins, Fbxl13 is frequently amplified in several cancer patient coh...
ORGANISM(S): Homo sapiens (Human) 
2022-03-02 | PXD006756 | Pride
Ubiquitin ligase Hek293t Fbxl13 Orbitrap elite F-box protein 
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