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ProteomicsA Panel of Glycopeptides as Candidate Biomarkers for Early Diagnosis of NASH Hepatocellular Carcinoma Using a Stepped HCD Method and PRM Evaluation
A comprehensive screening of glycopeptides as candidate biomarkers from human serum for early diagnosis of NASH hepatocellular carcinoma using a stepped HCD method and PRM evaluation. Glycopeptides from vitronectin(VTNC) has been reported as biomarkers for NASH-related HCCs.
ORGANISM(S): Homo sapiens (Human) 
2021-05-10 | PXD025455 | Pride
Stepped-hcd ms/ms Nash hcc Large-scale glycopeptides analysis Biomarkers 
ProteomicsMS-based sequencing of the anti-FLAG-M2 antibody
We demonstrate a method for direct de novo sequencing of monoclonal IgG from the purified antibody products. The method uses a panel of multiple complementary proteases to generate suitable peptides for de novo sequencing by LC-MS/MS in a bottom-up fashion. Furthermore, we apply a dual fragmentation...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2021-01-11 | PXD023419 | Pride
Antibody Stepped hcd Ethcd De novo sequencing 
ProteomicsOptimized fragmentation improves the identification of peptides cross-linked using MS-cleavable reagents
Cross-linking mass spectrometry (XLMS) is becoming increasingly popular, and current advances are widening the applicability of the technique so that it can be utilized by non-specialist laboratories. Specifically, the use of novel mass spectrometry-cleavable (MS-cleavable) reagents dramatically red...
ORGANISM(S): Bos taurus (Bovine) Cicer arietinum (Chickpea) (Garbanzo) Streptococcus pyogenes serotype M2 Candida albicans (Yeast) Homo sapiens (Human) Oryctolagus cuniculus (Rabbit) Escherichia coli Equus caballus (Horse) 
2019-02-01 | PXD011861 | Pride
Xlms Cross-linking Cleavable cross-linking reagents Dsso Stepped-hcd 
ProteomicsOptimized TMT-based quantitative cross-linking mass spectrometry strategy for large-scale interactomic studies
Cross-linking mass spectrometry is a powerful method for the investigation of protein-protein interactions from highly complex samples. XL-MS combined with tandem mass tag labeling holds the promise of large-scale PPI quantification. However, a robust and efficient TMT-based XL-MS quantification met...
ORGANISM(S): Homo sapiens (Human) Escherichia coli Bacteria 
2022-04-07 | PXD031114 | Pride
Faims Hek Ratio distortion E. coli Mass spectrometry Lumos Dsso Xl-ms Interactome Stepped hcd Cross-linking Interference Sps 
UnknownA Panel of Glycopeptides as Candidate Biomarkers for Early Diagnosis of NASH Hepatocellular Carcinoma Using a Stepped HCD Method and PRM Evaluation.
Not available
S-EPMC8188822 | biostudies-literature
ProteomicsHuman stomach LC-MSMS China Human Proteome Project
With the optional setting of multiple stepped collisional energies (NCEs), higher-energy collisional dissociation (HCD) as available on Orbitrap instruments is a widely adopted dissociation method for intact N-glycopeptide characterization, where peptide backbones and N-glycan moieties are selective...
ORGANISM(S): Homo sapiens (Human) 
2020-05-11 | PXD016865 | Pride
Human Lc-msms Hcd Stepped nces Stomach 
ProteomicsStradard protein and yeast top-down data
We developed a novel dissociation strategy in the data acquisition process, the Mesh strategy to dissociate multiple charge states of one proteoform with stepped HCD (high collision energy dissociation). We proved that the ‘Mesh’ strategy could generate fragments with improved sequence coverage and...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-06-09 | PXD022941 | Pride
Stepped hcd Instrument control Real-time Mesh Top-down 
ProteomicsAccurate and Fast Protein Acylation Identification by Eliminating Position Effects of Cyclic Immonium Ions with Stepped HCD
Cyclic immonium (CycIm) ions serve as invaluable diagnostic markers for lysine acylations, yet the principles governing their generation efficiency are poorly understood. Here, we systematically investigate this question and uncover a robust "position effect": the generation of immonium-type ions is...
ORGANISM(S): Homo Sapiens 
PXD065707 |
ProteomicsBreaking Barriers in Crosslinking Mass Spectrometry: Enhanced Throughput and Sensitivity with the Orbitrap Astral Mass Analyzer
Crosslinking mass spectrometry (XL-MS) has become a key technique for investigating protein-protein interactions and the architecture of biological systems. This study compares the Orbitrap Astral and Eclipse mass spectrometers in XL-MS workflows, emphasizing their performance in detecting low-abund...
ORGANISM(S): Homo sapiens (Human) 
2025-12-15 | PXD059096 | Pride
Crosslinking mass spectrometry Fragmentation Orbitrap eclipse Hcd Quality control Compensation voltage Orbitrap astral 
UnknownLarge Scale Screening and Quantitative Analysis of Site-Specific N-Glycopeptides from Human Serum in Early Alzheimer's Disease Using LC-HCD-PRM-MS.
Not available
S-EPMC10289803 | biostudies-literature
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