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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 
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 
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 
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 (Human) 
2020-04-30 | PXD018158 | Pride
Human Lc-msms Tmtpro Azidohomoalanine (aha) 
ProteomicsHEK293T cell nuclear & cytosolic proteome remodelling upon amino acid withdrawal. Related to Supplementary Table 4 from An et al (2020)
HEK293T proteome cytosolic vs nuclear fractionation upon short (3h) amino acids withdrawal.
ORGANISM(S): Homo sapiens (Human) 
2020-04-30 | PXD017856 | Pride
Human Lc-msms Cytosolic nuclear fractionation 
ProteomicsHEK293T cell translatome analysis upon Torin1 treatment or single amino acid withdrawal. Related to Supplementary Table 2 from An et al (2020)
HEK293T subject to Torin1 treatment or amino acid withdraw dataset and translatome analysis was determined using Azidohomoalanine (AHA) incorportation, Biotin-click, and streptavidin enrichment. TMT 10plex labelling was used. Three genotypes, WT (24 fractions), ATG7 KO (HA-9-53-1 single shot), RB1CC...
ORGANISM(S): Homo sapiens (Human) 
2020-04-30 | PXD018252 | Pride
Human Lc-msms Azidohomoalanine (aha) 
ProteomicsDMXL1 interaction proteomics from U2OS cells
To identify protein interactions with DMXL1, U2OS cells were engineered to either stably over-express DMXL1 tagged with mNeonGreen (mNG) or express HA-dTAG-tagged DMXL1 from the endogenous locus. Tagged DMXL1 was pulled-down by immunoprecipitation (IP) and IP samples were processed for TMT-MS analys...
ORGANISM(S): Homo sapiens (Human) 
2025-04-22 | PXD054967 | Pride
Lysosome Dmxl1 V-atpase Dmxl2 U2os 
ProteomicsFLAG-IP, FLAG-FBXO7 samples with domain deletions of FBXO7 variants, with or without FBXO7
Triplicate FLAG-Immunoprecipitations of FLAG-tagged FBXO7 constructs (full length (1-522), ∆N (169-522), ∆C (1-406), and ∆N∆C (169-406)) overexpressed in FBXO7-/- PSMF1-/- HEK293T cells. FBXO7∆N∆C co-overexpressed with full length PI31(1-271) is also included. Parental cells lacking tagged FBXO7 are...
ORGANISM(S): Homo sapiens (Human) 
2026-06-22 | PXD077028 | Pride
Parkinson's disease Human Ip-ms Fbxo7 
ProteomicsLysosomal storage disease proteo/lipidomic profiling using nMOST links ferritinophagy with mitochondrial iron deficiencies in cells lacking NPC2
Lysosomal storage diseases (LSDs) comprised ~50 gene loci causing the accumulation of cellular material in the lysosome and associated defects in lysosomal function, but systematic molecular phenotyping is lacking. Here, we apply a nanoflow-based multi-omic single-shot technology (nMOST) workflow to...
ORGANISM(S): Homo sapiens (Human) 
2024-10-08 | PXD049336 | Pride
Ferritinophagy Multiplexed tmt proteomics Oxphos Lysosomal storage disorders Mitochondrial function 
ProteomicsFLAG-IP, FLAG-FBXO7 samples with either full-length or C-terminally truncated FBXO7 expressed with or without PI31 present
Triplicate FLAG-Immunoprecipitations of FLAG-tagged FBXO7 overexpressed in FBXO7-/- PSMF1-/- HEK293T cells co-overexpressed with full length PI31(1-271), PI31∆PRR (1-151), or without PI31 (empty vector). wild type HEK293T containing FLAG-tagged eGFP samples represent a negative control IP Identities...
ORGANISM(S): Homo sapiens (Human) 
2026-06-22 | PXD077448 | Pride
Parkinson's disease Human Ip-ms Fbxo7 Pi31 
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