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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 
ProteomicsIdentification of CCNF/Cyclin F targets
The founding member of the F-box protein family, Cyclin F, serves as substrate adaptor for the Ubiquitin E3 ligase Skp1-Cul1-F-box (SCF)Cyclin F which is responsible for ubiquitination of proteins involved in cell cycle progression, DNA damage and mitotic fidelity. Missense mutations in CCNF encodin...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2022-09-13 | PXD030729 | Pride
Lc-ms Human Als Mouse Ccnf Cyclin f 
ProteomicsRole of ITCH in the endolysosomal damage response
Ubiquitin remnant (diGly) profiling of parental and ITCH knockout (KO) cells under endolysosomal damage conditions (LLOMe).
ORGANISM(S): Homo sapiens (Human) 
2024-10-18 | PXD039088 | Pride
Digly Itch Lysosome Llome Ubiquitin 
ProteomicsUBE2QL1 prximity proteome in HeLa cells in response to lysosomal damage
SILAC-based proximity proteomics of UAPEX2-tagged UBE2QL1 in differential LLOMe-treated HeLa cells
ORGANISM(S): Homo sapiens (Human) 
2019-08-22 | PXD014521 | Pride
Lysosome repair Ube2ql1 Lysophagy 
ProteomicsC9orf72 ubiquitin and interaction proteomics
C9orf72 binds SMCR8 to from a robust complex that regulates small GTPases, lysosomal integrity and autophagy. In contrast to this functional understanding, we know far less about assembly and turnover of the C9orf72-SMCR8 complex. Loss of either subunit causes the concurrent ablation of the respecti...
ORGANISM(S): Homo sapiens (Human) 
2023-05-10 | PXD039887 | Pride
Als Ftd Ubiquitin C9orf72 Smcr8 
ProteomicsAutophagosome content profiling - STAR Protocol Data Set
The ascorbate peroxidase APEX2 is commonly used to study the neighborhood of a protein of interest by proximity-dependent biotinylation. Here, we describe a protocol for sample processing compatible with immunoblotting and mass spectrometry that is suitable to specifically map the content of autopha...
ORGANISM(S): Homo sapiens (Human) 
2021-04-06 | PXD024335 | Pride
Human Apex2 Proximity proteomics Proteinase k digest 
ProteomicsTRAF6 substrate profiling by Ub-BOD
Our method (Ub-POD) exploits the proximity and the relative orientation of the E3-ligase catalytic domain with respect to ubiquitin observed in the enzymatic intermediate-state structures of E3-E2~Ub. By fusing biotin ligase BirA and an Avi tag variant to the candidate E3 ligase and ubiquitin, respe...
ORGANISM(S): Homo sapiens (Human) 
2024-10-17 | PXD052316 | Pride
Hela Bira Ubiquitin 
ProteomicsUbiquitin profiling of drug-like small molecule-treated cells
The ubiquitin system regulates eukaryotic physiology by modifying specific substrate proteins. Substrate recognition and the assembly of ubiquitin signals are determined by ubiquitin ligases, some of which also modify non-protein biomolecules. Here we expand this substrate realm, revealing that the ...
ORGANISM(S): Homo sapiens (Human) 
2025-09-10 | PXD067088 | Pride
Drug-like small molecules Digly Ubiquitin Huwe1 
ProteomicsInteractome of overexpressed BAG3 in HEK293T cells
HEK293T cells stably expressing N-terminally HA-tagged BAG3 were employed to screen for novel BAG3 interacting proteins.
ORGANISM(S): Homo sapiens (Human) 
2019-10-10 | PXD014473 | Pride
Ha-ip Bag3 Ltq velos 
ProteomicsProteomics analysis of myelin from GLTP KO mouse brains
To better understand the effects of GLTP cKO at the molecular level, we performed proteomics analysis of myelin purified from P28 Gltp cKO and Cre control mice.
ORGANISM(S): Mus musculus (Mouse) 
2024-09-18 | PXD055984 | Pride
Gltp Myelin Oligodendrocytes 
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