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ProteomicsSuperQuant: a Data Processing Approach to Increase Quantitative Proteome Coverage
SuperQuant is a quantitative proteomics data processing workflow that utilizes fragment ion complementarity to identify multiple co-isolated peptides in tandem mass spectra. Parent ion and label-free quantification method are supported. The performance of the developed approach was tested using dime...
ORGANISM(S): Homo sapiens (Human) 
2015-05-26 | PXD001907 | Pride
Data processing Post-aquisition Hela Complementary ions Lc-msms 
ProteomicsPotential of Negative Ion Mode Proteomics: MS1-Only Approach
Advancing Negative Ion Mode Proteomics. The main objective of the project is the exploration of the unconvetional negative ion mode for proteomics studies. In this work, we thoroughly studied the best chromatographic conditions for negative ion mode proteomics before testing different enzymatic dige...
ORGANISM(S): Homo sapiens (Human) 
2023-07-20 | PXD040583 | Pride
Ms/ms free Proteomics Negative ion mode 
ProteomicsProtein Corona of 60nm Silver Nanoparticles
We studied the composition of the protein corona formed on 60 nm silver nanoparticles with citrate coating interacted with the human blood plasma under various pH and temperature conditions. The protein corona was analyzed using LC-MS and label-free quantitation.
ORGANISM(S): Homo sapiens (Human) 
2019-01-23 | PXD007648 | Pride
Ag Lfq Nanoparticle Protein corona 
ProteomicsQuantitative proteomic analysis of glioblastoma subpopulations
Three glioblastoma subpopulations were analyzed by quantitative proteomics, using dimethyl labeling approach. Deconvolution of mixture spectra using SuperQuant software was employed to increase the depth of quantification.
ORGANISM(S): Homo sapiens (Human) 
2018-03-08 | PXD005245 | Pride
Glioblastoma Superquant Shotgun proteomics Cancer Lcms 
ProteomicsFast and robust proteome screening platform identifies neutrophil extracellular trap formation in the lung in response to cobalt ferrite nanoparticles
The goal of this study was to investigate the effects of magnetic iron cobalt oxide nanoparticles (cobalt doped Fe3O4 nanoparticles with increasing amounts of cobalt) after pulmonary exposure while in parallel presenting a proteomics platform that is easily transferable to large-scale nanotoxicology...
ORGANISM(S): Mus musculus (Mouse) 
2020-03-26 | PXD016148 | Pride
Tmt Iron cobalt oxide nanoparticles Balf Lung Clinical proteomics Nanoparticles Mouse Murine Label-free Metal oxide nanoparticles Bronchoalveolar lavage fluid 
ProteomicsIn vitro blood-brain barrier model proteome influenced by silver nanoparticles
Silver nanoparticles (AgNP) have been reported to penetrate the central nervous system and induce neurotoxicity. However, there is paucity in understanding the toxicity of AgNPs and their effect on the blood-brain barrier (BBB) including the underlying molecular mechanism(s) of action. Using an in v...
ORGANISM(S): Homo sapiens (Human) 
2018-11-07 | PXD009197 | Pride
Silver Tmt Lc-ms Nanoparticles Human Blood-brain barrier 
ProteomicsRetention time calibration for RP-HPLC at pH 9
The change in pH of the mobile phase drastically changes the retention mechanism of peptides, rendering currently available retention time prediction models useless. The aim of this study is to create a dataset of peptide retention times under basic (pH 9) HPLC conditions, allowing for the creation ...
ORGANISM(S): Homo sapiens (Human) 
2026-02-13 | PXD064311 | Pride
Hela Basic ph Rp-hplc 
ProteomicsGlucose-dependent insulinotropic polypeptide effects in type 1 diabetes
Glucose-dependent insulinotropic polypeptide (GIP) has been proposed to exert insulin-independent effects on lipid and bone metabolism. We investigated the effect of a 6-day s.c. GIP infusion on circulating lipids, white adipose tissue (WAT), brown adipose tissue (BAT), hepatic fat content, and infl...
ORGANISM(S): Homo sapiens (Human) 
2022-11-08 | PXD034803 | Pride
Human Multiomics Blood plasma Diabetes 
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