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ProteomicsComparing search algorithms - Visualizing and comparing results of different peptide identification methods
An approach to compare different peptide identification methods
ORGANISM(S): Escherichia coli 
2017-01-02 | PXD005118 | Pride
Peptide-spectrum matching Escherichia coli 
ProteomicsPROTEOMICS EVOLUTION FROM ACUTE TO POST-COVID-19 CONDITION
We performed longitudinal plasma proteomics analysis and determined absolute protein levels in a Canadian cohort (n=74) at admission day to hospital for acute COVID-19 and at 3 and 6 months after diagnosis of acute COVID-19. We measured plasma protein on a triple quadrupole mass spectrometer operate...
ORGANISM(S): Homo sapiens (Human) 
2024-01-26 | PXD041762 | Pride
Covid-19 Restrictive lung disease Post-covid-19 condition Targeted proteomics 
ProteomicsLongitudinal Plasma Proteomics Analysis of Acute COVID-19
The host response to COVID-19 pathophysiology over the first days of infection remains largely unclear especially the mechanisms in the blood compartment. We report here on a longitudinal proteomic analysis of acute phase COVID-19 patients, for which we used blood plasma and MRM proteomics with inte...
ORGANISM(S): Homo sapiens (Human) 
2022-02-16 | PXD029437 | Pride
Covid-19 Longitudinal analysis Amyloid Complement Acei Targeted quantitative proteomics Arb 
ProteomicsImproving identification of in-organello protein-protein interactions using an affinity-enrichable, isotopically-coded, and mass spectrometry-cleavable chemical crosslinker
An experimental and computational approach for identification of protein-protein interactions by in-vivo chemical crosslinking and mass spectrometry (CLMS) has been developed that takes advantage of the specific characteristics of cyanurbiotindipropionylsuccinimide (CBDPS), an affinity-tagged isotop...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-03-17 | PXD017066 | Pride
Cross-linking Yeast Mitochondria 
ProteomicsGlycoproteomic analysis of MGL binding protein on acute T cell leukemia cells
O-glycosylation is generally initiated by the transfer of a N-acetylgalactosamine to Ser/Thr residues of proteins, forming the Tn antigen. This truncated surface glycan is expressed at high levels by tumor cells and is associated with higher metastatic behaviour and poor prognosis of patients. The T...
ORGANISM(S): Homo sapiens (Human) 
2019-01-02 | PXD011307 | Pride
Glycoproteomics Leukemia O-glycosylation Tn-antigen Lectin 
ProteomicsClostridioides difficile phosphoproteomics shows an expansion of phosphorylated proteins in stationary growth phase
Phosphorylation is a post-translational modification that can affect both house-keeping functions and virulence characteristics in bacterial pathogens. In the Gram-positive enteropathogen Clostridioides difficile the extent and nature of phosphorylation events is poorly characterized, though a prote...
ORGANISM(S): Peptoclostridium difficile (strain 630) (Clostridium difficile) 
2022-02-16 | PXD029475 | Pride
Clostridioides difficile Phosphoproteomics 
ProteomicsN-glycoproteins have a major role in MGL binding to colorectal cancer cell lines
Colorectal cancer (CRC) is the second leading cause of cancer death worldwide due in part to a high proportion of patients diagnosed at advanced stages of the disease. For this reason, many efforts have been made towards new approaches for early detection and prognosis. Cancer-associated aberrant gl...
ORGANISM(S): Homo sapiens (Human) 
2020-08-10 | PXD020344 | Pride
Glycoproteomics  tmt labelling  c-type lectin  colorectal cancer  lacdinac  tn antigen 
ProteomicsOxonium ion guided analysis of quantitative proteomics data reveals site-specific O-glycosylation of anterior gradient protein 2 (AGR2)
Developments in mass spectrometry (MS)-based analyses of glycoproteins have been important to study changes in glycosylation related to disease. Recently, the characteristic pattern of oxonium ions in glycopeptide fragmentation spectra had been used to assign different sets of glycopeptides. In part...
ORGANISM(S): Homo sapiens (Human) 
2022-02-17 | PXD025805 | Pride
Glycoproteomics  tmt labeling  oxonium ion  lc−ms/ms  o-glycosylation  colorectal cancer  agr2 
UnknownProteotyping of knockout mouse strains reveals sex- and strain-specific signatures in blood plasma.
Not available
S-EPMC8163790 | biostudies-literature
ProteomicsConcentration determination of >200 proteins in dried blood spots for biomarker discovery and validation
Raw files were created using XCalibur 3.0.63 (Thermo Scientific) software and analysed with Thermo Proteome Discoverer 2.2.0.388 software suite (Thermo Scientific). The raw data files were processed as previously described 26 with the following modifications: the peak lists were submitted to Mascot...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2019-11-27 | MSV000084629 | MassIVE
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