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ProteomicsEThcD-sceHCD-MS/MS-based Clinical N-glycoproteomics
Site-specific N-glycosylation characterization requires intact N-glycopeptide analysis based on suitable tandem mass spectrometry (MS/MS) method. Electron-transfer/higher-energy collisional dissociation (EThcD), stepped collision energy/higher-energy collisional dissociation (sceHCD), and higher-ene...
ORGANISM(S): Homo sapiens (Human) 
2022-04-04 | PXD030288 | Pride
Glycoproteomics Mass spectrometry Ethcd-scehcd Fragmentation mode N-glycosylation Clinical sample 
ProteomicsComparison of affinity enrichment methods for O-GlcNAc proteomics
In this work, by using the lysates of PANC-1 (a pancreatic cancer cell line), we provided a head-to-head comparison of three affinity enrichment methods/materials (i.e., antibody, lectin AANL6, and an OGA mutant) for O-GlcNAc proteomics. The enrichment was performed before or after high-pH HPLC frac...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Saccharomyces Cerevisiae (ncbitaxon:4932) 
2024-04-23 | MSV000094604 | MassIVE
ProteomicsSite-specific N-glycosylation Characterization of Micro Disease-related Proteins Based on EThcD-sceHCD-MS/MS
Monoclonal immunoglobulin produced by clonal plasma cells is the main cause in multiple myeloma and monoclonal gammopathy of renal significance. Because of the complicated purification method and the low stoichiometry of purified protein and glycans, site-specific N-glycosylation characterization fo...
ORGANISM(S): Homo sapiens (Human) 
2022-09-13 | PXD035757 | Pride
N-glycosylation  microscale  serum  monoclonal immunoglobulin  mass spectrometry  ethcd-scehcd 
ProteomicsBranched N-glycan of PD-L1 predicts immunotherapy responses in patients with recurrent/metastatic HNSCC
Immunotherapy has revolutionized cancer treatment, however, a reliable biomarker is missing. MGAT5-mediated PD-L1 glycosylation is critical for its interaction with PD-1. MGAT5 expression is a functional biomarker that predicts immunotherapy responses.
ORGANISM(S): Homo sapiens (Human) 
2025-05-06 | PXD045506 | Pride
Mgat5 Immunotherapy N-glycosylation Pd-l1 Head and neck squamous cell carcinoma (hnscc) 
ProteomicsSimply extending the EThcD MS/MS range increases the confidence in N-glycopeptide identification.
Glycoproteomics raw files containing all classes of N-glycopeptides. Each file has been run as HCD-pd-EThcD where EThcD was triggered upon observation of signature glycopeptide oxonium ions. Additionally each file was measured with 2 different m/z ranges; standard (up to 2000 m/z for both HCD and ET...
ORGANISM(S): Cricetulus Griseus (ncbitaxon:10029) Homo Sapiens (ncbitaxon:9606) 
2019-04-22 | MSV000083710 | MassIVE
ProteomicsA study into the ADP-ribosylome of IFN--stimulated THP-1 human macrophage-like cells identifies ARTD8/PARP14 and ARTD9/PARP9 ADP-ribosylation
ADP-ribosylation is a post-translational modification that, until recently, has remained elusive to study at the cellular level. Previously dependent on radioactive tracers to identify ADP-ribosylation targets, several advances in mass spectrometric workflows now permit global identification of ADP-...
ORGANISM(S): Homo sapiens (Human) 
2020-01-27 | PXD011690 | Pride
Electron transfer higher-energy collision dissociation (ethcd) Proteomics Gas phase segmentation Higher-energy collision dissociation (hcd) Parallel reaction monitoring (prm) Orbitrap fusion lumos Post-translational modification (ptm) 
ProteomicsA systematic evaluation of fragmentation methods for unlabeled and isobaric mass tag-labeled O-glycopeptides
Dissecting site-specific functions of O-glycosylation requires simultaneous identification and quantification of differentially ex-pressed O-glycopeptides by mass spectrometry. However, different dissociation methods have not been systematically compared in their performance in terms of identificati...
ORGANISM(S): Homo sapiens (Human) 
2021-11-25 | PXD025407 | Pride
Glycoproteomics Hcd Etd Lc-ms/ms 
ProteomicsOptimal Dissociation Methods Differ for N- and O-glycopeptides
Site-specific characterization of glycosylation requires intact glycopeptide analysis, and recent efforts have focused on how to best interrogate glycopeptides using tandem mass spectrometry (MS/MS). Beam-type collisional activation, i.e., higher-energy collisional dissociation (HCD), has been a val...
ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human) 
2020-07-20 | PXD017646 | Pride
Glycoproteomics N-glycopeptides Scehcd Ethcd O-glycopeptides Etd 
UnknownComparative N-Glycoproteomics Analysis of Clinical Samples Via Different Mass Spectrometry Dissociation Methods.
Not available
S-EPMC8907888 | biostudies-literature
ProteomicsC4PR_LIV Evaluation of Parameters for Confident Phosphorylation Site Localization using an Orbitrap Fusion Tribrid Mass Spectrometer
Confident identification of sites of protein phosphorylation by mass spectrometry (MS) is essential to advance understanding of phosphorylation-mediated signaling events. However, development of novel instrumentation requires that methods for MS data acquisition and its interrogation be evaluated an...
ORGANISM(S): Homo sapiens (Human) 
2019-09-27 | PXD007058 | Pride
Mascot/ptmrs Andromeda/ptmscore Orbitrap fusion Mass spectrometry Phosphoproteomics 
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