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ProteomicsComparison of DDA (Orbitrap Exploris 480) and DIA (timsTOF Pro 2) phosphoproteomics
In this experiment, 3 replicate phosphopeptide enrichments using titanium dioxide spin tips (GL Science) of the filamentous fungus Magnaporthe oryzae were measured on a) Orbitrap Exploris 480 in DDA and b) timsTOF Pro 2 in DIA for comparison of model/acquisition type differences.
ORGANISM(S): Cellular Organisms 
2023-04-13 | PXD038605 | JPOST Repository
ProteomicsTime series proteome and phosphoproteome of HOG1 deficient Magnaporthe oryzae osmostress
Investigation of rapid evolutionary adaptation events of Magnaporthe oryzae of HOG1 deficient mutants. Osmosensitive mutants adapt and re-gain osmoregulatory capabilities. Proteomics and phosphoproteomics were analyzed to shed light on the underlying processes.
ORGANISM(S): Cellular Organisms 
2023-04-13 | PXD034481 | JPOST Repository
ProteomicsLC-MS confirmation of alternative YPD1 isoforms from Magnaporthe oryzae
This project aims to understand better the stress response mechanisms of components of the well known High Osmolarity Glycerol two-component regulatory system in the model organism Magnaporthe oryzae. Currently, two putative isoforms of the transfer protein YPD1 (MGG_07173) are described as theoreti...
ORGANISM(S): Pyricularia oryzae 70-15 
2021-09-10 | PXD024832 | Pride
In-gel digest Lc-ms/ms Ypd1 Isoform identification Alternative splicing Magnaporthe oryzae 
ProteomicsSpecificity of the protase acrosin in zona pellucida proteins
This study aims to characterize the sperm protease acrosin.
ORGANISM(S): Mus musculus (Mouse) Sus scrofa domesticus (domestic pig) 
2021-04-09 | PXD023659 | Pride
Mammalian fertilization Fetuin-b Zona pellucida Ovastacin Acrosin 
ProteomicsIdentification of kinase activity in ischemic heart disease
We performed discovery proteomics and phosphoproteomics analysis of human heart tissue to identify possibly hyperactive pathways in ischemic heart disease.
ORGANISM(S): Homo sapiens (Human) 
2023-03-11 | PXD024727 | Pride
Phosphoproteomics Map kinase activity Myeloid cell coagulation Ischemic heart disease 
ProteomicsHowDirty: An R package to evaluate molecular contaminants in LC-MS experiments
Contaminants derived from consumables, reagents, and sample handling often negatively affect LC-MS data acquisition. In proteomics experiments, they can markedly reduce identification performance, reproducibility, and quantitative robustness. Here, we introduce a data analysis workflow combining MS1...
ORGANISM(S): Homo Sapiens (human) 
2023-10-12 | PXD044032 | JPOST Repository
ProteomicsIonmob: A Python Package for Prediction of Peptide Collisional Cross-Section Values
Motivation: Including ion mobility separation (IMS) into mass spectrometry proteomics experiments is useful to improve coverage and throughput. Many IMS devices enable linking experimentally derived mobility of an ion to its collisional cross-section (CCS), a highly reproducible physicochemical pro...
ORGANISM(S): Homo Sapiens (human) Mus Musculus (mouse) 
2023-09-21 | PXD043026 | JPOST Repository
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