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ProteomicsHYpro16: A Two-Proteome Mixture to Assess Interference in Isobaric Tag-Based Sample Multiplexing Experiments
Isobaric tagging is a powerful strategy for global proteome profiling. A caveat of isobaric tag-based quantification is “interference” which may be caused by co-eluting peptides that are co-isolated, co-fragmented, and co-analyzed, thereby confounding quantitative accuracy. Here, we present a two-pr...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2021-08-16 | PXD020815 | Pride
Multiplex Tmt Sps-ms3 Standard Lumos Multi-notch 
ProteomicsEvaluating False Transfer Rates from the Match-Between-Runs algorithm with a two-proteome model
Stochasticity between independent LC-MS/MS runs is a challenging problem in the field of proteomics resulting in significant missing values (i.e., abundance measurements) among observed peptides. To address this issue, several approaches have been developed including computational methods such as Ma...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2019-09-25 | PXD014415 | Pride
False transfer rate Match-between-runs Label-free quantitation Two-proteome mixture 
UnknownHYpro16: A Two-Proteome Mixture to Assess Interference in Isobaric Tag-Based Sample Multiplexing Experiments.
Not available
S-EPMC8210950 | biostudies-literature
ProteomicsQuantitative Label-free Proteomic Analysis of Ovarian Antral Follicles Exposed In Vivo to a Mixture of Phthalates
Dibutyl phthalate (DBP), di-2-ethylhexyl phthalate (DEHP), and benzyl butyl phthalate (BBP) are three phthalates commonly found in consumer products, including the plastic coating of pharmaceuticals and personal care products. Folliculogenesis, a tightly regulated process occurring in the ovary, is ...
ORGANISM(S): Mus musculus (Mouse) 
2024-07-18 | PXD047061 | Pride
Phthalates Ovarian antral follicles 
ProteomicsProteome-wide evaluation of two common protein quantification methods
Proteomics experiments commonly aim to estimate and detect differential abundance across all expressed proteins. Within this experimental design, some of the most challenging measurements are small fold changes for lower abundance proteins. While bottom-up proteomics methods are approaching comprehe...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2018-04-05 | PXD007683 | Pride
Tmt Lfq Maxquant 
ProteomicsThe impact II, a very high resolution quadrupole time-of-flight instrument for deep shotgun proteomics
Hybrid quadrupole time-of-flight (QTOF) is one of the two major mass spectrometric technologies used in proteomics. Although based on simple fundamental principles, it has over the last decades greatly evolved in terms of achievable resolution, mass accuracy and dynamic range. The Bruker impact plat...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Saccharomyces Cerevisiae (ncbitaxon:4932) Mus Musculus (ncbitaxon:10090) 
2016-07-19 | MSV000079935 | MassIVE
ProteomicstipNrich, a tip-based N-terminal proteome enrichment method
Protein N-termini provide valuable information such as half-life of protein, but one of hurdles to study N-terminome is that it requires large amount of sample, but this requirement might be problematic for analyzing the limited samples such as low number of cells of clinical biopsies. In this regar...
ORGANISM(S): Bos taurus (Bovine) Mus musculus (Mouse) Escherichia coli Bacillus subtilis 
2022-12-05 | PXD027961 | Pride
Human plasma Recombinant single proteins Protein mixture Lc-ms/ms 
ProteomicsEvaluation of iTRAQ and SWATH-MS for the quantification of proteins associated with insulin resistance in human duodenal biopsy samples
Insulin resistance (IR) is associated with increased production of triglyceride-rich lipoproteins of intestinal origin. In order to assess whether insulin resistance affects the proteins involved in lipid metabolism, we used two mass spectrometry based quantitative proteomics techniques to compare t...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000080194 | MassIVE
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 (ncbitaxon:9606) 
2018-08-27 | MSV000082855 | MassIVE
ProteomicsMultiplexed Proteome Profiling of Carbon Source Perturbations in Two Yeast Species with SL-SP3-TMT
Saccharomyces cerevisiae and Schizosaccharomyces pombe are the most commonly studied yeast model systems, yet comparisons of global proteome remodeling between these yeast species are scarce. Here, we profile the proteomes of S. cerevisiae and S. pombe cultured with either glucose or pyruvate as the...
ORGANISM(S): Homo sapiens (Human) 
2021-05-11 | PXD014546 | Pride
Sps-ms3 Cerevisiae Pombe Tmt Isobaric Pyruvate 
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