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ProteomicsIsoform-resolved Correlation Analysis Between mRNA Abundance Dynamics and Protein Level Degradation
We employed an optimized, sensitive DIA-MS method on a high-resolution Orbitrap platform and re-measured the proteomic samples used in a previous study, in which the heterogeneity of HeLa cells across different research labs was analyzed by a multi-omic approach. Using the same MS sample sets of all...
ORGANISM(S): Homo sapiens (Human) 
2020-03-11 | PXD014847 | Pride
Alternative splicing Protein turnover Protein isoform Dia mass spectrometry Correlation analysis Pulsed silac 
ProteomicsPeroxiredoxin 6 protects irradiated cells from oxidative stress and shapes their senescence-associated cytokine landscape, secretome analysis
Cellular senescence is a complex stress response defined as an essentially irreversible cell cycle arrest mediated by the inhibition of cell cycle-specific cyclin dependent kinases. The imbalance in redox homeostasis and oxidative stress have been repeatedly observed as one of the hallmarks of the s...
ORGANISM(S): Homo sapiens (Human) 
2022-02-16 | PXD028772 | Pride
Secretome analysis Peroxiredoxin 6 Cellular senescence Dia Exploris Ionizing radiation 
ProteomicsMOLT-4 radiosensitization by VE-821
DNA damage induction by either radio- or chemo-therapy has been the most widely used approach in cancer therapy, exploiting the genomic instability of cancer cells. A promising strategy takes advantage of tumour specific abnormalities in DNA damage response. Inhibition of the ATR/Chk1 pathway has be...
ORGANISM(S): Homo sapiens (Human) 
2018-07-16 | PXD008925 | Pride
Ionizing radiation  small-molecule kinase inhibitors  ve-821  atr kinase  dna damage response  radio-sensitization  quantitative shotgun phosphoproteomics  titanium dioxide chromatography  silac  leukemia  molt-4 cells 
ProteomicsA Robust Multiplex-DIA Workflow Profiles Protein Turnover Regulations Associated with Cisplatin Resistance and Aneuploidy
Measuring protein turnover is essential for understanding cellular biological processes and advancing drug discovery. The multiplex-DIA mass spectrometry (DIA-MS) approach, combined with dynamic SILAC labeling (pulse-SILAC, or pSILAC), has proven to be a reliable method for analyzing protein turnove...
ORGANISM(S): Homo sapiens (Human) 
2025-05-14 | PXD057632 | Pride
Aneuploidy Quantitative proteomics Protein turnover Dia Drug resistance Multiplex-dia Pulse silac 
ProteomicsRedox-proteomic analysis of pancreatic β-cells upon glucose stimulation
Redox signaling mediated by reversible oxidative cysteine thiol modifications is crucial for driving cellular adaptation to dynamic environmental changes, maintaining homeostasis, and ensuring proper function. This is particularly critical in pancreatic β-cells, which are highly metabolically active...
ORGANISM(S): Mus musculus (Mouse) Rattus norvegicus (Rat) 
2024-09-30 | PXD052765 | Pride
Iodotmt Redox proteomics 
ProteomicsMolecular basis for the interaction of intrinsically disordered proteins with nuclear PIP2 compartments
Phosphatidylinositol 4,5 bisphosphate (PIP2) is the most abundant eukaryotic nuclear phosphoinositide. PIP2 is found in the nuclear speckles (NS), nucleoli (NL), and nuclear lipid islets (NLIs) and participates in the RNA polymerase II (Pol2) transcription. The formation of phase-separated nuclear s...
ORGANISM(S): Homo sapiens (Human) 
2024-09-30 | PXD045745 | Pride
Ap-ms Pip2 
ProteomicsProtein expression in isogenic cancer cell line models of 1q aneuploidy
Investigating differential protein expression between 1q trisomy and 1q disomy cancer cell lines in isogenic backgrounds
ORGANISM(S): Homo sapiens (Human) 
2023-06-15 | PXD037956 | Pride
Aneuploidy Cancer 
ProteomicsProteomic and phosphoproteomic analysis of KRAS mutant variants in pancreatic cancer cell lines
KRAS is mutated in over 90% of pancreatic ductal adenocarcinomas (PDAC), where hotspot alterations in codons 12, 13, and 61 drive tumor initiation and progression. Although distinct biochemical properties have been described for individual KRAS mutants, whether they generate unique allele-specific s...
ORGANISM(S): Homo sapiens (Human) 
2026-09-10 | PXD071086 | Pride
Kras Pdac 
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