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ProteomicsThe inflammation repressor TNIP1 is degraded by selective autophagy in a LIR-dependent manner upon TLR3 activation
In the project « The inflammation repressor TNIP1 is degraded by selective autophagy in a LIR-dependent manner upon TLR3 activation » Jianwen Zhou, Nikoline Lander Rasmussen, Vyacheslav Akimov, Blagoy Blagoev, Trond Lamark, Terje Johansen and Jörn Dengjel performed MS-based proteomics to study the f...
ORGANISM(S): Homo sapiens (Human) 
2022-08-07 | PXD027163 | Pride
Lc-msms Inflammation Silac Human 
ProteomicsEGF-dependent ubiquitinome, phosphorylation and interactome analysis in control and CYLD-deficient cells
Cylindromatosis tumor suppressor protein (CYLD) is deubiquitinase, best known as an essential negative regulator of the NFkB pathway. Previous studies have suggested an involvement of CYLD in epidermal growth factor (EGF)-dependent signal transduction as well, as it was found enriched within the tyr...
ORGANISM(S): Homo sapiens (Human) 
2017-06-05 | PXD006390 | Pride
Cyld Prm Hela Phosphorylation Egfr Ubiquitin 
ProteomicsFibrosis-activated transcriptional networks govern hepatocyte reprogramming and intra-hepatic communication in metabolic associated liver fibrosis
Liver fibrosis is a strong predictor of long-term mortality in patients with non-alcoholic fatty liver disease; yet the mechanisms underlying the progression from the comparatively benign fatty liver state to advanced non-alcoholic steatohepatitis (NASH) and liver fibrosis are incompletely under-sto...
ORGANISM(S): Mus musculus (Mouse) 
2021-07-13 | PXD025691 | Pride
Prm Glis2 Liver fibrosis Elf3 Mouse Exploris 480 Nash 
ProteomicsDDI2 is a ubiquitin-directed endoprotease, responsible for cleavage of transcription factor NRF1
The Ddi1/DDI2 proteins are ubiquitin shuttling factors, implicated in a variety of cellular functions. In addition to ubiquitin-binding and ubiquitin-like domains, they contain a conserved region with similarity to retroviral proteases, but whether and how DDI2 functions as a protease has remained u...
ORGANISM(S): Homo sapiens (Human) 
2020-06-24 | PXD019152 | Pride
Ubisite Prm Ddi2 Ubiquitin Hph Lc-ms/ms 
ProteomicsPhosphoproteomic profiling reveals a defined genetic program for osteoblastic lineage commitment of human bone marrow derived stromal stem cells
Bone marrow-derived mesenchymal stem cells (MSCs) differentiate into osteoblasts upon induction by signals present in their niche. As the global signaling cascades involved in the early phases of MSCs osteoblast (OB) differentiation are not well-defined, we employed quantitative mass spectrometry (S...
ORGANISM(S): Homo sapiens (Human) 
2021-09-08 | PXD011001 | Pride
Mscs Mass spectrometry Silac Differentiation Osteoblast Phosphorylation 
ProteomicsEGF-dependent ubiquitinome, phosphorylation and interactome analysis in control and CYLD-deficient cells
The goal of the present project was to investigate the EGF-dependent ubiquitination changes occurring in HeLa cells upon a CYLD deficiency. We applied SILAC-based quantitative mass spectrometry proteomics together with genetic engineering and biochemical approaches, in order to enrich the ubiquitina...
ORGANISM(S): Homo sapiens (Human) 
2017-06-05 | PXD003423 | Pride
Ubiquitination Egf Cyld 
ProteomicsAcute deletion of the glucocorticoid receptor in hepatocytes disrupts postprandial lipid metabolism
Hepatic lipid metabolism is highly dynamic, and disruption of several circadian transcriptional regulators results in hepatic steatosis. This includes genetic disruption of the glucocorticoid receptor (GR) as the liver develops. To address the functional role of GR in the adult liver, we used an acu...
ORGANISM(S): Mus musculus (Mouse) 
2023-09-07 | PXD041168 | Pride
Glucocorticoid receptor knockout mice Dia Mouse Lipid metabolism Circadian rhythm Liver Lc-ms/ms 
ProteomicsStUbEx PLUS in U2OS
StUbEx PLUS – a modified Stable tagged Ubiquitin Exchange system for Peptide Level purification and in-depth mapping of Ubiquitination Sites. Applying StUbEx PLUS to U2OS cells treated with proteasomal inhibitors MG132 or Bortezomib resulted in the identification of 41,582 sites mapping on 7,762 pro...
ORGANISM(S): Homo sapiens (Human) 
2022-03-01 | PXD006092 | Pride
Site specific ubiquitination  ubiquitination sites  n-terminal ubiquitination  proteasomal inhibition  mg132: bortezomib 
ProteomicsAdipose MDM2 regulates systemic insulin sensitivity through nuclear import of MORC2 and the PPARγ cofactor LIPIN1
The intimate association between obesity and type II diabetes urges for a deeper understanding of adipocyte function. We and others have previously delineated a role for the tumor suppressor p53 in adipocyte biology. Here, we show that mice haploinsufficient for MDM2, a key regulator of p53, in thei...
ORGANISM(S): Mus musculus (Mouse) 
2022-02-15 | PXD020812 | Pride
Morc2 Obesity Pparγ C/ebp Mdm2 Lipin1 
ProteomicsPlasmalemma vesicle-associated protein in hepatic stellate cells is a central regulator of hepatic fatty acid utilization
The liver is essential for fatty acid utilization during fasting. Fatty acids released by lipolysis from adipose tissue during fasting are taken up from the blood by hepatocytes and esterified as triacylglycerols for oxidative metabolization and ketogenesis. Whereas the regulation of fatty acid oxid...
ORGANISM(S): Mus musculus (Mouse) 
2025-03-07 | PXD046745 | Pride
Nefa Fatty liver Stellate cells 
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