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ProteomicsHEK293T cell degradome (pulse chase) time course (5h, 10, 15h) analysis upon Torin1 treatment. Related to Supplementary Table 3 from An et al (2020)
HEK293T Azidohomoalanine (AHA) Pulse Chase (degradome) time course experiment, were cells from various genetic background (WT, ATG7-/-, RB1CC1-/-) are treated or not with Torin1 for 5h, 10h or 15h. Samples are Biotin-click, and streptavidin enriched, digested and labeled with TMTpro 16plex.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-03-02 | MSV000091397 | MassIVE
ProteomicsDeciphering the logic of mammalian mitochondrially-localised translation
Localised translation broadly enables spatiotemporal control of gene expression yet currently there are limited tools for monitoring subcellular translation in mammalian cells. Here we present LOCL-TL (LOV-domain Controlled Ligase for Translation Localisation) an optogenetic approach for labelling r...
ORGANISM(S): Homo sapiens (Human) 
2025-07-29 | PXD054646 | Pride
Human Mitochondria Localised translation 
ProteomicsTemporal Proteomics During Neurogenesis Reveals Large-scale Proteome and Organelle Remodeling via Selective Autophagy
Raw mass spectrometry data associated with the following paper: Temporal Proteomics During Neurogenesis Reveals Large-scale Proteome and Organelle Remodeling via Selective Autophagy. DOI:10.1016/j.molcel.2021.10.001 Related to Figure1D: AO3335-AO3345 Related to Figure4B: Day0 (AO3379-3390); Day4 (AO...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2021-08-09 | MSV000087961 | MassIVE
ProteomicsEndo-IP and Lyso-IP Toolkit for Endolysosomal Profiling of Human Induced Neurons
We developed a toolkit for capturing endosomes (Endo-IP) and lysosomes (Lyso-IP) in human stem cell(hESC)-derived induced neurons (iNeurons). We target a sub-population of early endosomes marked by endogenously tagged EEA1 (Early Endosome Antigen 1) protein, which represents one of the earliest popu...
ORGANISM(S): Homo sapiens (Human) 
2025-01-11 | PXD055978 | Pride
Human Tmt Endosomes Ineurons Lysosomes 
ProteomicsQuantitative mapping of autophagic cargo during nutrient stress reveals YIPF3 - YIPF4 as membrane receptors for Golgiphagy_part2_neurons
During nutrient stress, macroautophagy is employed to degrade cellular macromolecules, thereby providing biosynthetic building blocks while simultaneously remodeling the proteome. While the machinery responsible for initiation of macroautophagy is well characterized, our understanding of the extent ...
ORGANISM(S): Homo sapiens (Human) 
2023-09-13 | PXD043923 | Pride
Human Autophagy Ineurons 
ProteomicsQuantitative mapping of autophagic cargo during nutrient stress reveals YIPF3 - YIPF4 as membrane receptors for Golgiphagy
During nutrient stress, macroautophagy is employed to degrade cellular macromolecules, thereby providing biosynthetic building blocks while simultaneously remodeling the proteome. While the machinery responsible for initiation of macroautophagy is well characterized, our understanding of the extent ...
ORGANISM(S): Homo sapiens (Human) 
2023-09-06 | PXD038358 | Pride
Protein turnover Nutrient stress Golgiphagy Autophagy 
ProteomicsQuantitative proteomics reveals the selectivity of ubiquitin-binding autophagy receptors in the turnover of damaged lysosomes by lysophagy
Removal of damaged organelles via the process of selective autophagy constitutes a major form of cellular quality control. Damaged organelles are recognized by a dedicated surveillance machinery, leading to the assembly of an autophagosome around the damaged organelle, prior to fusion with ...
ORGANISM(S): Homo sapiens (Human) 
2021-09-23 | PXD027476 | Pride
Interaction proteomics Selective autophagy Organelle proteomics Tax1bp1 Lysophagy 
ProteomicsLysosomal proteome characterization during TRPML1 activation by MLSA5 in human cancer cells
To capture the changes in the lysosomal proteome upon TRPML1 activation, achieved using a small molecule agonist MLSA5, human cancer cells, with or without gene-editing, stably expressing TMEM192-mRFP-3xHA (Lyso-IP), were treated with MLSA5 and Lyso-IP samples were prepared and processed for TMT-MS ...
ORGANISM(S): Homo sapiens (Human) 
2025-04-22 | PXD054968 | Pride
Mlsa5 Tmt A101d V-atpase Lysosome Trpml1 Dmxl2 Dmxl1 Lyso-ip U2os Atg16l1 
ProteomicsCross-linking mass spectrometry of DMXL1-mNG immunoprecipitated complex
To capture protein interactions, cross-linking experiments were performed on immune complexes prepared by affinity-purification of DMXL1-mNG from U2OS cells.
ORGANISM(S): Homo sapiens (Human) 
2025-04-22 | PXD054973 | Pride
Cross-linking Dmxl1 V-atpase Dsso 
ProteomicsDMXL1 interaction proteomics from U2OS cells infected with SidK
To assess the effect of SidK expression on DMXL1 interaction with the V1 subunits of the V-ATPase, U2OS cells stably expressing DMXL1 tagged with mNeonGreen (mNG) were infected with lentivirus to express either mCherry or mCherry-SidK. Post-infection, cells were harvested to perform immunoprecipitat...
ORGANISM(S): Homo sapiens (Human) 
2025-04-22 | PXD061791 | Pride
Lysosome Dmxl1 V-atpase Sidk U2os 
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