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ProteomicsAP-MS analysis of human FUBIeS30/FAU WT and non-cleavable G73,4A and G74V mutants
To discover candidate FUBIeS30 proteases, we performed affinity purification from human cell lysates expressing tandem Strep II-hemagglutinin (StHA)-tagged WT or mutant (G73,74A or G74V) FUBIeS30-StHA constructs. Subsequent analysis of the co-purified proteins by mass spectrometry (LC-MS/MS) identif...
ORGANISM(S): Homo sapiens (Human) 
2021-08-05 | PXD021864 | Pride
Fubies30 Fau Ap-ms Dda Dub 
ProteomicsAP-MS analysis of human RIOK1 and USP16
To discover novel factors involved in the final steps of 40S ribosomal subunit biogenesis in human cells, we isolated late cytoplasmic 40S subunit precursors by affinity purification (AP) of the assembly factor RIOK1. Subsequent analysis of their composition by mass spectrometry (MS) led to identifi...
ORGANISM(S): Homo sapiens (Human) 
2020-03-04 | PXD016458 | Pride
Usp16 Ap-ms Riok1 Dda 
ProteomicsDynamic 3D proteomes reveal functional pathway alterations in situ
Many biological processes are regulated via molecular events, such as intermolecular interactions and chemical modifications, which do not affect protein levels and escape detection in classical proteomic screens. Reasoning that these events affect protein structure, we propose here that a global pr...
ORGANISM(S): Escherichia coli Saccharomyces cerevisiae (Baker's yeast) 
2020-11-02 | PXD022297 | Pride
Lc-msms Heat shock Metabolism Dia Limited proteolysis Structural barcodes Osmotic stress Dda Structure-function Shotgun proteomics 
ProteomicsQuantitative variability of 342 plasma proteins in a human twin population
The human plasma proteome is clinically highly significant and has been studied extensively because it is thought that its molecular makeup provides a window into the health state of an individual. However, neither the quantitative variability of the plasma proteome nor the origins of the variation ...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-07-20 | MSV000079937 | MassIVE
OtherPhosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast.
Data from ProteomeXchange, PXD ID: PXD001445. File: vagas_O1210_369.c.mzXML. Published as part of Mol Syst Biol. 2014 Dec 9;10(12):767 . From the Abstract: {{i}} Cells respond to environmental stimuli via specialized signaling pathways. Concurrent stimuli trigger multiple pathways that integrate in...
ORGANISM(S): Yeast 
GPM32320005651 | GPMDB
Resource Reanalysis 
ProteomicsLFQbench enables a multi-centered benchmark study demonstrating robust proteomic label-free quantification
The consistent and accurate quantification of proteins is a challenging task for mass spectrometry (MS)-based proteomics. SWATH-MS uses data-independent acquisition (DIA) for label-free quantification. Here we evaluated five software tools for processing SWATH-MS data: OpenSWATH, SWATH2.0, Skyline, ...
ORGANISM(S): Escherichia Coli (ncbitaxon:562) Homo Sapiens (ncbitaxon:9606) Saccharomyces Cerevisiae (ncbitaxon:4932) 
2017-04-27 | MSV000081024 | MassIVE
ProteomicsDigital mapping of immunopeptidomes
We present a novel mass spectrometry-based high-throughput workflow and an open-source computational and data resource to reproducibly identify and quantify HLA-associated peptides. Collectively, the resources support the generation of HLA allele-specific peptide assay libraries consisting of consen...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-04-04 | MSV000079623 | MassIVE
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