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ProteomicsA sensitive and cost-effective approach for tyrosine phosphoproteome analysis based on SH2 superbinder
Albeit much less abundant than Ser/Thr phosphorylation (pSer/pThr), Tyr phosphorylation (pTyr) is considered a hallmark in cellular signal transduction. However, its analysis remains a challenge. The conventional immunopurification (IP) approach using antibodies pan-specific to pTyr sites is known t...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2017-08-29 | PXD005838 | Pride
Lc ms/ms Sh2 superbinder Ptyr phosphoproteome 
ProteomicsHuman serum glycoproteome - Glyco-Decipher
Identification results of peptide-spectrum matches supporting Glyco-Decipher manuscript (Glyco-Decipher: Glycan database-independent peptide matching enables discovery of new glycans and in-depth characterization of site-specific N-glycosylation). Recently, several elegant bioinformatics tools have ...
ORGANISM(S): Homo sapiens (Human) 
2022-03-04 | PXD031025 | Pride
Glycoproteomics  glycopeptide  glycosylation  n-glycosylation 
ProteomicsRe-analysis of glycoproteomics data with Glyco-Decipher
Reanalysis of submissions PXD005411, PXD005413, PXD005412, PXD005553, PXD005555, PXD005565 and PXD019937 using Glyco-Decipher. Identification results of peptide-spectrum matches supporting Glyco-Decipher manuscript (Glyco-Decipher: glycan database-independent peptide matching enables discovery of ne...
ORGANISM(S): Mus musculus (Mouse) Saccharomyces cerevisiae (Baker's yeast) 
2022-03-04 | PXD031032 | Pride
Glycoproteomics  glycopeptide  reanalysis  glycosylation  n-glycosylation 
ProteomicsEvaluation of the impacts of detergent introduction on the target identification performance of TPP
In this study, we assessed the target identification performance of TPP in the presence of a commonly used non-ionic detergent or a zwitterionic detergent using a pan-kinase inhibitor staurosporine, our results showed that the addition of either of these detergents significantly impaired the identif...
ORGANISM(S): Homo sapiens (Human) 
2023-07-20 | PXD042332 | Pride
Mild detergents  thermal proteome profiling  target protein identification 
ProteomicsJurkat 2D-LC-MS/MS - Enzyme Kinetics for Complex System Enables Accurate Determination of Specificity Constants of Numerous Substrates in a Mixture by Proteomics Platform
We found the ratio of substrate depletion is independent of other coexisted substrates under specific condition with the application of self-developed iteration approach. The further established simplified model was applied to determine the catalytic efficiencies of peptide substrates of a protease ...
ORGANISM(S): Homo sapiens (Human) 
2017-02-08 | PXD004665 | Pride
Glu-c Catalytic efficiency Jurkat 
ProteomicsSolvent-Induced partial Cellular Fixation Approach enables systematic identification of drug targets and temporal progression of downstream biochemical pathways in living cells
In this study, we introduce a novel approach, the Solvent-Induced Partial Cellular Fixation Approach (SICFA), to monitor drug targets and the temporal progression of downstream biochemical pathways in living cells. We observed that proteins in living cells undergo unfolding and aggregation when expo...
ORGANISM(S): Homo sapiens (Human) 
2025-10-15 | PXD057157 | Pride
Proteomics  protein stability  drug target identification  drug binding potency  downstream effector proteins  living cells analysis 
ProteomicsArginine dimethylation and liquid-liquid phase separation
Recently, arginine methylation was found to regulate the protein LLPS which drives the formation of MLOs. Here, we developed a chemical enrichment method coupled with LC-MS/MS to analyze dynamic change of arginine di-methylation upon SG formation.
ORGANISM(S): Homo sapiens (Human) 
2022-10-20 | PXD033048 | Pride
Liquid-liquid phase separation Arginine dimethylation Chemical enrichment method Stress granule Rg/rgg motifs 
ProteomicsArginine dimethylation and liquid-liquid phase separation_Supplementary
Recently, arginine methylation was found to regulate the protein LLPS which drives the formation of MLOs. Here, we developed a chemical enrichment method coupled with LC-MS/MS to analyze dynamic change of arginine di-methylation upon SG formation.
ORGANISM(S): Homo sapiens (Human) 
2022-10-20 | PXD035137 | Pride
Liquid-liquid phase separation Arginine dimethylation Chemical enrichment method Stress granule Rg/rgg motifs 
ProteomicsProteome-Wide Deconvolution of Drug Targets and Binding Sites by Lysine Reactivity Profiling
Recently, numerous efforts have been devoted to identifying drug targets and binding sites in complex proteomes, which is of great importance in modern drug discovery. In this study, we developed a robust lysine reactivity profiling method to systematically study drug-binding targets and binding sit...
ORGANISM(S): Homo Sapiens 
2023-09-28 | PXD045749 |
Proteomics[HPP-2.0] A tyrosine phosphoproteome analysis approach enabled by selective dephosphorylation with protein tyrosine phosphatase
Protein tyrosine phosphorylation (pTyr) plays a prominent role in signal transduction and regulation in all eukaryotic cells. In conventional immunoaffinity purification (IP) methods, phosphotyrosine peptides are isolated from the digest of cellular protein extracts with a phosphotyrosine-specific a...
ORGANISM(S): Homo Sapiens 
2023-09-26 | PXD045682 |
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