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ProteomicsA Dual-Acting Nitric Oxide Donor and Phosphodiesterase 5 Inhibitor Activates Autophagy in Primary Skin Fibroblasts
In the project “A Dual-Acting Nitric Oxide Donor and Phosphodiesterase 5 Inhibitor Activates Autophagy in Primary Skin Fibroblasts» by Esther Martínez-Martínez and Joern Dengjel, we performed expression proteomics analyzing the response of normal human fibroblasts (NHF) isolated from healthy skin to...
ORGANISM(S): Homo sapiens (Human) 
2022-06-25 | PXD032893 | Pride
Skin Fibroblast Human Lc-ms/ms 
ProteomicsMouse Podocyte Proteome - ARP3 Controls the Podocyte Architecture at the Kidney Filtration Barrier
Label-free expression proteomics analysis of FACS-sorted mouse podocytes versus non-podocytes
ORGANISM(S): Mus musculus (Mouse) 
2018-12-14 | PXD010601 | Pride
Mouse Glomerulus Kidney Gfp Lc-ms/ms 
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 
ProteomicsPhosphoproteomic analysis of UBQLN2 mutant cells
In the project “Phosphoproteomic analysis of UBQLN2 mutant cells” by Laura Strohm, Zehan Hu, Jörn Dengjel, and Christian Behrends eight sets of SILAC experiments were performed, two times four biological replicates, comparing proteome and phosphoproteome of control and UBQLN2 mutant, patient-derived...
ORGANISM(S): Homo sapiens (Human) 
2022-06-28 | PXD029730 | Pride
Human Lc-msms Lcl Phosphoproteomics 
ProteomicsCharacterisation of the pseudokinase SCYL1
In the project “Characterisation of the pseudokinase SCYL1” by Stéphanie Kaeser-Pebernard and Jörn Dengjel, 3 sets of experiments were performed to study the function of SCYL1. (1) Classical affinity purification-MS of HA-SCYL1 expressing cells were performed to study the SCYL1 interactome. (2) ...
ORGANISM(S): Homo sapiens (Human) 
2022-07-19 | PXD024550 | Pride
Lc-msms Golgi Scyl1 Exosome Human 
ProteomicsULK1 regulated phosphatases in mouse and human cells
In the project “ULK1 regulated phosphatases” by Zehan Hu, Devanarayanan Siva Sankar, Björn Stork and Jörn Dengjel two sets of bottom-up MS-based chemical proteomics experiments were performed in which phosphatase complexes were enriched based on their activity using microcystin-LR coupled sepharose ...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2021-11-03 | PXD022383 | Pride
Autophagy Mefs Chemical proteomics Silac A549 
ProteomicsGlobal Phosphoproteomics Pinpoints Uncharted Gcn2-Mediated Modes of Translational Control
To identify new Gcn2 target proteins, we performed a set of Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC)-based quantitative phosphoproteomics experiments, in which we compared WT cells to gcn2∆ and sui2S52A cells (n=3), all treated, or not, with rapamycin, which has previously been...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-03-22 | PXD021109 | Pride
Phosphoproteomics Yeast Rapamycin Lc-ms/ms Translation 
ProteomicsScaffold-free 3D cell culture of primary skin fibroblasts induces profound changes of the matrisome
We analyze the effect of magnetic 3D bioprinting using NanoShuttle-PL on the proteome of primary human skin fibroblasts and epidermal squamous cell carcinoma cells. NanoStuttle-PL employs magnetic nanoparticles that interact electrostatically with cells rendering them magnetic and allowing manipulat...
ORGANISM(S): Homo sapiens (Human) 
2021-07-16 | PXD023701 | Pride
Skin Fibroblast Nanoshuttle Human 
ProteomicsPhosphoproteomic Responses of Distal TORC1 Target Kinases Reveal Discrete and Convergent Mechanisms that Orchestrate the Quiescence Program in Yeast
TORC1 inhibition following nutrient limitation unlocks various distally controlled kinases (e.g., Atg1, Gcn2, Slt2/Mpk1, Npr1, Rim15, and Yak1), which cooperate through poorly defined circuits to orchestrate the quiescence program. To better define the signaling landscape of the latter kinases, we u...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-02-08 | PXD028028 | Pride
Silac Kinase Phosphoproteomics Yeast 
ProteomicsULK1 on-bead in vitro kinase assay
Label-free phosphoproteomics of in vitro kinase assays. Three sets of bottom-up proteomics experiments were performed.
ORGANISM(S): Mus musculus (Mouse) 
2021-11-03 | PXD022759 | Pride
Mouse Lc-ms Phosphoproteomics 
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