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ProteomicsMass spectrometry-based top-down proteomics in nanomedicine: proteoform-specific measurement of protein corona
Conventional mass spectrometry (MS)-based bottom-up proteomics (BUP) analysis of protein corona [i.e., an evolving layer of biomolecules, mostly proteins, formed on the surface of nanoparticles (NPs) during their interactions with biomolecular fluids] enabled nanomedicine community to partly identif...
ORGANISM(S): Homo sapiens (Human) 
2024-10-15 | PXD050779 | Pride
Protein corona Top-down proteomics Nanomedicine Plasma Proteoform 
ProteomicsMass Spectrometry-Based Top-Down Proteomics for Proteoform Profiling of Protein Corona
The protein corona, a layer of biomolecules—primarily proteins—that adsorb to nanoparticle (NP) surfaces in biological fluids, critically affects NP safety and their therapeutic and diagnostic functions. Additionally, the protein corona effectively reduces proteome complexity and the dynamic range o...
ORGANISM(S): Homo sapiens (Human) 
2025-09-08 | PXD060784 | Pride
Top-down proteomics Mass spectrometry Nanomedicine Protein corona 
ProteomicsTop-Down proteomics and Bottom-Up terminomics for the Detection of Protein Termini in C. elegans
Here we investigate how top-down proteomics (TDP) can be of value for the detection of protein termini. Either GELFrEE or solid-phase enrichment was conducted for pre-fraction. To verify the detected N-termini HUNTER (High-efficiency Undecanal-based N Termini EnRichment) was employed. Reductive dime...
ORGANISM(S): Caenorhabditis elegans 
2022-09-26 | PXD033668 | Pride
Orbitrap q exactive plus Gelfree Mspathfinder Top-down proteomic C. elegans Orbitrap fusion lumos Informed proteomics Bottom-up proteomics Prosight 
ProteomicsCapillary zone electrophoresis-tandem mass spectrometry for top-down proteomics of mouse brain integral membrane proteins
Mass spectrometry (MS)-based top-down characterization of integral membrane proteins (IMPs) is crucial for understanding their functions in biological processes. However, it is technically challenging due to their low solubility in typical MS-compatible buffers. In this work, for the first time, we ...
ORGANISM(S): Mus musculus (Mouse) 
2023-12-07 | PXD042298 | Pride
Top-down proteomics  integral membrane protein  proteoform  capillary zone electrophoresis-mass spectrometry  mouse brain 
ProteomicsTop-down proteomics study of aging and sexual dimorphism of zebrafish brains
Here, we present the first example of studying the aging and sexual dimorphism of brains using the zebrafish (Danio rerio) model organism by mass spectrometry (MS)-based quantitative top-down proteomics (TDP). We measured the proteoforms in male and female zebrafish brains across three ages (6, 16, ...
ORGANISM(S): Danio rerio (Zebrafish) (Brachydanio rerio) 
2026-01-12 | PXD060426 | Pride
Central nervous system aging proteoform identification zebrafish 
ProteomicsSpatially-Resolved Top-Down Proteomics of Zebrafish Brain Using Capillary Zone Electrophoresis-Tandem Mass Spectrometry
Understanding region-specific proteoform profiles in the brain is crucial for deciphering neural function and identifying potential therapeutic targets. Here, we present a comprehensive label-free quantitative top-down proteomics (TDP) analysis of distinct zebrafish brain regions using capillary zon...
ORGANISM(S): Danio rerio (Zebrafish) (Brachydanio rerio) 
2026-06-08 | PXD070925 | Pride
Proteoform Top-down proteomics Zebrafish brainregions 
ProteomicsCZE-MS/MS-based quantitative top-down proteomics reveals significant proteoform differences between healthy and Alzheimer's disease human brains
Alzheimer’s disease (AD) is a neurodegenerative disorder characterized by cognitive decline and pathological protein aggregation. Comprehensive protein characterization of human brains of AD patients and comparison with healthy samples is critical for pursuing a better understanding of the molecular...
ORGANISM(S): Homo sapiens (Human) 
2025-11-21 | PXD065459 | Pride
Top-down proteomics Human brain Proteoform Tau phosphorylation. Cze-ms/ms Alzheimer's disease 
ProteomicsIntegrated top-down and bottom-up mass spectrometry enables precise characterization of proteoforms and their post-translational modifications within the protein corona
Precise characterization of proteins and proteoforms within the protein corona is essential for developing safer and more effective nanomedicines for diagnostic and therapeutic applications. Although the protein corona phenomenon has been recognized in nanomedicine for nearly two decades, the applic...
ORGANISM(S): Homo sapiens (Human) 
2026-05-14 | PXD077545 | Pride
Bup Peptide Ptm Proteoform Protein corona Tdp 
ProteomicsAutomated capillary isoelectric focusing-tandem mass spectrometry for top-down proteomics
Mass spectrometry (MS)-based top-down proteomics (TDP) delineates proteoforms in cells and requires high-resolution proteoform separation. Herein, for the first time, we employed an automated capillary isoelectric focusing-tandem MS (cIEF-MS/MS) system for large-scale TDP of complex proteomes. Singl...
ORGANISM(S): Danio rerio (Zebrafish) (Brachydanio rerio) Escherichia coli 
2020-12-08 | PXD020342 | Pride
Endogenous hormone proteoforms/gel-free 2d-page/multi-level proteomics/ sexual dimorphism/zebrafish brain 
ProteomicsEnhance proteoform sequence coverage by using top-down proteomics and middle-proteomics
Using in-source fragmention in top-down proteomics experiments and limited digestion time for middle-down experiments to enhance the sequence coverage.
ORGANISM(S): Bos taurus (Bovine) Equus caballus (Horse) 
2026-02-17 | PXD068831 | Pride
Lc-ms Mdp Tdp 
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