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ProteomicsRatio accuracy evaluation and correction using tandem mass tags
The multiplexing capabilities of isobaric mass tag based protein quantification, such as Tandem Mass Tags (TMT) or Isobaric Tag for Relative and Absolute Quantitation (iTRAQ) have dramatically increased the scope of Mass Spectrometry (MS) based proteomics studies. Not only does the technology allow ...
ORGANISM(S): Homo sapiens (Human) 
2016-07-01 | PXD003346 | Pride
Hcd Tandem mass tags Quantitative mass spectrometry Label-free quantification 
ProteomicsEvidence for a ‘trap-and-flip’ mechanism in a proton-dependent lipid transporter
Lipid transporters from the major facilitator superfamily (MFS) have been reported to play central roles in diverse fundamental biological pathways. However, little is known about their transport mechanisms and only the structure of the MFS lipid transporter LtaA in an outward-facing conformation ha...
ORGANISM(S): Staphylococcus aureus subsp. aureus NCTC 8325 
2022-05-16 | PXD031166 | Pride
Ltaa Targeted mass spectrometry 
ProteomicsThe quantitative proteome of a human cell line
The generation of mathematical models of biological processes, the simulation of these processes under different conditions, and the comparison and integration of multiple data sets are explicit goals of systems biology that require the knowledge of the absolute quantity of the system's components. ...
ORGANISM(S): Homo sapiens (Human) 
2015-05-07 | PXD002117 | Pride
Nuclear pore complex Mass spectrometry U2os Absolute quantification 
MetabolomicsUntargeted metabolomics as a hypothesis-generation tool in plant protection product discovery: Highlighting the potential of trehalose and glycerol metabolism of fungal conidiospores as novel targets

INTRODUCTION: The production of high quality and safe food represents a main priority for the agri-food sector in the effort to sustain the exponentially growing human population. Nonetheless, there are major challenges that require the discovery of new, alternative, and improved...

2020-09-08 | MTBLS1565 | MetaboLights
ProteomicsA jack of all trades and a master of some: remodeling of signaling pathways downstream of CFIm 3’ end processing factor
The mammalian cleavage factor I (CFIm) has been implicated in alternative polyadenylation (APA) in a broad range of contexts, from cancers to learning deficits and parasite infections. To uncover the molecular pathways that translate CFIm expression levels into these observed phenotypes, we carried ...
ORGANISM(S): Homo sapiens (Human) 
2022-02-11 | PXD027034 | Pride
Tmt Phosphorylation Cfim3 
MetabolomicsLipid Data Analyzer: Analysis of a complex biological system from murine liver samples (Murine liver lipidome experiment)
Lipid Data Analyzer (LDA; http://genome.tugraz.at/lda2) provides automated and reliable annotation of lipid species and their molecular structures in high-throughput data from chromatography-coupled tandem mass spectrometry using embedded rule sets. Using various low- and high-resolution mass spectr...
2017-11-07 | MTBLS396 | MetaboLights
ProteomicsMolecular basis of impaired extraocular muscle function in a mouse model of congenital myopathy due to compound heterozygous RYR1 mutations
Mutations in the RYR1 gene are the most common cause of human congenital myopathies and patients with recessive mutations are severely affected and characteristically display ptosis and/or ophthalmoplegia. In order to gain insight into the mechanism leading to extraocular muscle involvement, we inve...
ORGANISM(S): Mus musculus (Mouse) 
2023-03-15 | PXD016879 | Pride
Proteomics Muscle Ryr1 Eom 
ProteomicsDiscovery of lipotoxicity-sensitive transcription factors in non-alcoholic steatohepatitis
Non-alcoholic fatty liver disease is continuum of disorders among which non-alcoholic steatohepatitis (NASH) is particularly associated with a negative prognosis. Hepatocyte lipotoxicity is one of the main pathogenic factors of liver fibrosis and NASH. However, the molecular mechanisms regulating th...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2022-07-08 | PXD026717 | Pride
Tmt Transcription factor Non-alcoholic steatohepatitis 
ProteomicsComparison of the proteome-wide alkylation signatures of antimalarial peroxides: ozonides vs. artemisinin
Antimalarial peroxides such as the phytochemical artemisinin or the synthetic artefenomel are activated by reductive cleavage of the peroxide bond. This happens inside the malaria parasite, presumably in the food vacuole with ferrous heme as the electron donor. The generated carbon-centered radicals...
ORGANISM(S): Plasmodium falciparum NF135/5.C10 
2022-02-24 | PXD010264 | Pride
Malaria Label-free quantification Peroxides 
ProteomicsAging Yeast - Protein biogenesis machinery is a driver of replicative aging in yeast
Quantitative analysis of protein changes in yeast cell of different age
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2015-10-05 | PXD001714 | Pride
S. cerevisae 
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