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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 
ProteomicsTop-Down proteomics of unfractionated Bovine heart mitochondria
Top-Down proteomics pilot experiment of unfractionated Bovine Heart Mitochondria (BHM) using ultra high resolution Q-ToF tandem mass spectrometry (maXis 4G ETD, Bruker Daltonics).
ORGANISM(S): Bos taurus (Bovine) 
2018-04-05 | PXD005350 | Pride
Bovine Mitochondrion Protein Intact Top-down proteomics 
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 
ProteomicsPredicting electrophoretic mobility of proteoforms for large-scale top-down proteomics
Large-scale top-down proteomics characterizes proteoforms in cells globally with high confidence and high throughput using reversed-phase liquid chromatography (RPLC)-tandem mass spectrometry (MS/MS) or capillary zone electrophoresis (CZE)-MS/MS. The false discovery rate (FDR) from the target-decoy ...
ORGANISM(S): Escherichia coli 
2020-02-17 | PXD017265 | Pride
Top-down proteomics Electrophoretic mobility Cze-ms Proteoform 
ProteomicsRevealing Corynebacterium glutamicum proteoforms through top-down proteomics
Corynebacterium glutamicum is a bacterium widely employed in the industrial production of amino acids as well as a broad range of other biotechnological products. The present study describes the characterization of C. glutamicum proteoforms, and their post-translational modifications (PTMs) employin...
ORGANISM(S): Corynebacterium glutamicum ATCC 13032 
2022-12-10 | PXD038038 | Pride
Top-down proteomics Corynebacterium glutamicum Proteoforms 
ProteomicsSarcomeric Proteoform Landscape in Ischemic Cardiomyopathy Defined by Top-down Proteomics
In ischemic cardiomyopathy (ICM), left ventricular systolic dysfunction leads to reduced blood flow and oxygen supply to the heart. Alterations in sarcomeric protein function and expression play prominent roles in the onset and progression of cardiomyopathies; however, the molecular mechanisms under...
ORGANISM(S): Homo sapiens (Human) 
2023-02-20 | PXD038066 | Pride
Ischemic cardiomyopathy Top-down proteomics Sarcomere Z-disk proteins Myofilament proteins Quantitative proteomics Human heart proteomics 
ProteomicsQuantitative Top-Down Proteomics Analysis of Age-related Changes in Murine Hearts
Label-free quantitative top-down proteomics was performed on mitochondrial lysate isolated from the hearts of 3 young (4-month-old) and 3 old (24-25-month-old) mice.
ORGANISM(S): Mus musculus (Mouse) 
2024-10-17 | PXD051505 | Pride
Top-down Quantitative Aging 
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 
ProteomicsUniversal Solid-Phase Protein Preparation (USP3) for bottom-up and top-down proteomics
Selecting a sample preparation strategy for mass spectrometry-based proteomics is critical to the success of quantitative workflows. Here we present a universal, solid-phase protein preparation (USP3) method which is rapid, robust and scalable, facilitating high-throughput protein sample preparation...
ORGANISM(S): Homo sapiens (Human) 
2019-06-05 | PXD011169 | Pride
Top-down proteomics Universal solid-phase protein preparation Bottom-up proteomics Intact mass spectrometry 
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 
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