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ProteomicsAbundance analysis of chromatin-residing proteins during lineage conversion using protein aggregation capture (PAC)
We performed abundance analysis of chromatin-residing proteins in BLaER1 cells during the early stages of B-cell-to-macrophage transdifferentiation. We employed protein aggregation capture (PAC) to analyze chromatin-residing protein abundances at 0, 6 and 24 h after induction of transdifferentiation...
ORGANISM(S): Homo sapiens (Human) 
2026-05-27 | PXD076495 | Pride
Mass spectrometry Transdifferentiation Human Chromatin Blaer1 
ProteomicsEvaluation of PAC and FASP performance
The objective of the experiment was to compare the performance of PAC and FASP.
ORGANISM(S): Pisum sativum (Garden pea) Glycine max Homo sapiens (Human) 
2024-06-16 | PXD044349 | Pride
Benchmarking Data-independent acquisition Protein aggregation capture Filter-aided sample preparation 
ProteomicsSugarQuant: a streamlined pipeline for multiplexed quantitative site-specific N-glycoproteomics
Site-specific regulation of protein N-glycosylation is essential in human cells. However, accurate quantification of glycosylation sites and their individual glycan moieties in a cell-wide manner is still technically challenging. Here, we introduce SugarQuant, an integrated mass spectrometry-based p...
ORGANISM(S): Homo sapiens (Human) 
2020-08-24 | PXD018349 | Pride
Glycosylation 
ProteomicsBenchmark for Quantitative Global and Redox Proteomics Analysis by Combining Protein-Aggregation Capture and Data Independent Acquisition
Oxidative damage is critical in various diseases, including cardiovascular and neurological conditions. Thiol redox reactions, acting as oxidative stress sensors, influence protein structure and function. Redox proteomics based on differential alkylation of reduced and oxidized Cys forms using mass ...
ORGANISM(S): Sus scrofa domesticus (domestic pig) 
2025-09-08 | PXD060030 | Pride
Myocardial tissue Proteomics Dia Redox Ischemia-reperfusion Atrial fibrillation 
ProteomicsComparative Analysis of Lysine-Specific Peptidases for Optimizing Proteomics Workflows
This study presents a comparative analysis of three LysC endopeptidases homologues from Achromobacter lyticus, Pseudomonas aeruginosa, and Lysobacter enzymogenes for mass spectrometry-based proteomics. Utilizing a protein aggregation capture (PAC) workflow with HeLa cell lysate, we assessed the enzy...
ORGANISM(S): Homo sapiens (Human) 
2026-02-23 | PXD068827 | Pride
Endoproteinase lys-c Proteomics workflow Method development Label-free quantitation Bottom-up proteomics Proteolytic enzymes Lc-ms/ms 
UnknownEvaluation of PAC and FASP Performance: DIA-Based Quantitative Proteomic Analysis.
Not available
S-EPMC11121386 | biostudies-literature
ProteomicsInduced pluripotent stem cell-derived macrophages as a model for human inflammasome signalling
Macrophage models are a mainstay of inflammasome research, however current human in vitro macrophage models have significant limitations. Here we generate induced pluripotent stem cell (iPSC)-derived macrophages (iMacs) to study inflammasome signalling and benchmark them with human monocyte-derived ...
ORGANISM(S): Homo sapiens (Human) 
2026-06-04 | PXD068076 | Pride
Protein aggregation capture (pac) Innate immunity Lipopolysaccharide (lps) Mass spectrometry Macrophages Proteomics Inflammasomes 
ProteomicsA non-hazardous deparaffinization protocol enables quantita-tive proteomics of core needle biopsy-sized formalin-fixed and paraffin embedded (FFPE) tissue specimens.
Most human tumor tissues that are obtained for pathology and diagnostic purposes are forma-lin-fixed and paraffin embedded (FFPE). To perform quantitative proteomics of FFPE samples, paraffin has to be removed and formalin-induced crosslinks have to be reversed prior to prote-olytic digestion. A c...
ORGANISM(S): Homo sapiens (Human) 
2022-05-19 | PXD031946 | Pride
Clinical proteomics  tumor tissues  ffpe  quantitative proteomics  core needle biopsy  cancer research  molecular pathology  breast ductal carcinoma  in-situ cancer 
ProteomicsFormaldehyde fixation helps preserving proteome state during single-cell proteomics sample processing and analysis
While mass spectrometry-based single cell proteomics (SCP) is gaining significant momentum, it is largely limited to a few laboratories worldwide. The ability to send samples to specialized core facilities, collaborators, would greatly benefit non-specialists laboratories or those unable to afford t...
ORGANISM(S): Homo sapiens (Human) 
2025-02-05 | PXD054445 | Pride
Single-cell proteomics Formaldehyde fixation 
ProteomicsGRK-biased adrenergic agonists for the treatment of type II diabetes and obesity
Biased agonism of G protein-coupled receptors (GPCRs) holds great promise for the development of safer medications. Current efforts have explored the balance between heterotrimeric G proteins and the scaffold protein b-arrestin; however, other transducers like GPCR kinases (GRKs) represent important...
ORGANISM(S): Mus musculus (Mouse) 
2025-05-05 | PXD058545 | Pride
B2ar Phosphoproteomics Obesity Grk2 Diabetes 
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