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ProteomicsQuantifying Positional Isomers (QPI) by top-down mass spectrometry
Proteomics has exposed a plethora of post-translational modifications, but demonstrating functional relevance requires new approaches. Top-down proteomics can characterize co-occurring modifications in terms of localization, abundance and hierarchy. Here, we present a top-down MS analysis workflow f...
ORGANISM(S): Homo sapiens (Human) 
2021-03-18 | PXD012084 | Pride
Top-down mass spectrometry Positional isomers Quantitation Phosphorylation 
ProteomicsBioinformatics Analysis of Top-Down Mass Spectrometry Data with ProSight Lite
Datafiles for Bioinformatics Analysis of Top-Down Mass Spectrometry Data with ProSight Lite
ORGANISM(S): Equus Caballus (ncbitaxon:9796) Bos Taurus (ncbitaxon:9913) 
2021-04-13 | MSV000087182 | MassIVE
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 
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 
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 
ProteomicsCharacterization of intact proteomic profile of senescent-associated secretory phenotype (SASP) by top-down mass spectrometry.
Senescent cells are increasingly recognized as major contributors to age-related diseases, primarily through the secretion of bioactive molecules known as the senescence-associated secretory phenotype (SASP). The SASP plays a crucial role in promoting various age-related conditions, including neurod...
ORGANISM(S): Homo sapiens (Human) 
2025-12-29 | PXD061829 | Pride
Senescence  aging  top-down proteomics  proteoforms  biomarkers  sasp  senescence-associated secretory phenotype 
ProteomicsSingle-shot top-down proteomics with capillary zone electrophoresis-electrospray ionization-tandem mass spectrometry for identification of nearly 600 Escherichia coli proteoforms
Capillary zone electrophoresis-electrospray ionization-tandem mass spectrometry (CZE-ESI-MS/MS) has been recognized as an invaluable platform for top-down proteomics. However, the scale of top-down proteomics from CZE-MS/MS is still limited due to the low loading capacity and narrow separation windo...
ORGANISM(S): Escherichia coli 
2017-10-30 | PXD007273 | Pride
Top-down proteomics Cze-ms/ms E.coli 
ProteomicsMonitoring mAb proteoforms in mouse plasma using an automated immunocapture combined with top-down and middle-down mass spectrometry
We propose here a workflow based on an automated immunocapture followed by top-down and middle-down LC-MS/MS approaches to characterize mAb proteoforms spiked in mouse plasma. We demonstrate the applicability of our workflow on a large concentration range using pembrolizumab as a model. We also comp...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2024-08-27 | PXD040896 | Pride
Immunocapture Monoclonal antibody Proteoforms Middle-down mass spectrometry Top-down mass spectrometry 
ProteomicsTop-Down Mass Spectrometry Analysis of Histone Modifications in Sorghum during Drought Acclimation
This study explores the changes in histone modifications of sorghum bicolor through developmental stages and in response to drought stress in two sorghum genotypes. We analyzed the leaves of 48 plants using top-down mass spectrometry and identified 26 unique histone proteins and 677 unique histone p...
ORGANISM(S): Sorghum bicolor 
2019-10-30 | PXD014660 | Pride
Post-translational modifications Mass spectrometry Top-down Plant Epigenetics Histone clipping 
ProteomicsCapillary zone electrophoresis-tandem mass spectrometry with activated ion electron transfer dissociation for large-scale top-down proteomics
Capillary zone electrophoresis (CZE)-tandem mass spectrometry (MS/MS) has been recognized as an efficient approach for top-down proteomics recently for its high-capacity separation and highly sensitive detection of proteoforms. However, the commonly used collision-based dissociation methods often ca...
ORGANISM(S): Escherichia coli 
2019-06-11 | PXD012247 | Pride
Top-down proteomics E. coli Cze-ms Ai-etd 
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