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ProteomicsQuantification of mitochondrial translation by pulse SILAC
We developed a simple method that combined biochemical mitochondria isolation and pulse SILAC approach to monitor the mitochondrial translation. Our approach allows us to quantify 12 out of the 13 mitochondrial translation products, the highest coverage among analogous methods reported, and provide ...
ORGANISM(S): Homo Sapiens (human) 
2022-12-28 | PXD022476 | JPOST Repository
ProteomicsEV71 proteomics - Analysis of EV71 infection progression using triple-SILAC-based proteomics approach
Enterovirus 71 (EV71), a member of Picornaviridae, causes severe neurological and systemic illness in children. To better understand the virus-host cell interactions, we performed a triple-SILAC-based quantitative proteomics study monitoring host cell proteome changes after EV71 infection. Based on ...
ORGANISM(S): Homo sapiens (Human) 
2015-08-31 | PXD002483 | Pride
Enterovirus 71  tripletof 5600  triple silac  proteomics 
ProteomicsIdentification of a USP9X Substrate NFX1-123 by SILAC-based Quantitative Proteomics
The deubiquitinase USP9X related with multiple diseases including neurodegeneration, epilepsy and various type of tumor, by targeting different substrates. In our study, to deep study USP9X functional candidate substrates, we performed SILAC-based quantitative proteomic to compare knockdown USP9X w...
ORGANISM(S): Homo sapiens (Human) 
2019-05-13 | PXD012871 | Pride
Usp9x nfx1-123 silac 
ProteomicsSILAC-based proteomic quantification of chemoattractant induced cytoskeleton dynamics on a second to minute timescale
Cytoskeletal dynamics during cell behaviours ranging from endocytosis and exocytosis to cell division and movement is controlled by a complex network of signalling pathways, the full details of which are as yet unresolved. Here we show that SILAC-based proteomic methods can be used to characterise t...
ORGANISM(S): Dictyostelium discoideum (Slime mold) 
2014-02-26 | PXD000738 | Pride
Cytoskeleton Silac 
ProteomicsSILAC-based quantitative proteomics of endoplasmic reticulum stress
ER stress and the unfolded protein response (UPR) involve extensive proteome remodeling in many cell compartments. However, a comprehensive analysis has been lagging due to technological limitations. Here we employ SILAC-based proteomics to quantify over 6,200 proteins at increasing concentrations o...
ORGANISM(S): Homo sapiens (Human) 
2019-11-01 | PXD013496 | Pride
Unfolded protein response Proteomics Silac Tunicamycin Endoplasmic reticulum stress 
ProteomicsSILAC-based quantitative proteomic analysis of the livers of spontaneous obese and diabetic rhesus monkeys
Type 2 diabetes mellitus (TM) is a severely metabolic disorder that affects above 10% worldwide population. Obesity is a major cause of insulin resistance and contributes to the development of TM. Liver is an essential metabolic organ that plays crucial roles in the pathogenesis of obesity and diabe...
ORGANISM(S): Macaca mulatta (Rhesus macaque) 
2019-08-26 | PXD008825 | Pride
Spontaneous type 2 diabetes  liver  rhesus monkey  silac-based quantitative proteomics. 
ProteomicsBenchmarking LFQ, SILAC and MS2/MS3-based TMT quantification strategies for large-scale phosphoproteomics
Comprehensive mass spectrometry (MS)-based proteomics is now feasible, but reproducible and multiplexed quantification remains challenging especially for analysis of post-translational modifications (PTMs), such as phosphorylation. Here we compared the most popular quantification techniques for phos...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2018-03-13 | PXD007145 | Pride
Phosphoproteomics Ms3 Ms2 Tmt Silac Lfq Technical Benchmark Quantification 
ProteomicsmTMT: An alternative, non-isobaric, tandem mass tag allowing for precursor-based quantification
Stable isotope labeling of peptides is the basis for numerous mass spectrometry-based quantification strategies. Isobaric tagging and metabolic labeling, namely TMT and SILAC, are among the most widely used techniques for relative protein quantification. Here we report an alternative, precursor-base...
ORGANISM(S): Homo sapiens (Human) 
2019-09-16 | PXD014545 | Pride
Silac Tmt Isobaric Sh-sy5y Svgp12 Metabolic 
ProteomicsSILAC-Based Strategy for Proteome-Wide Analysis of Protein-Ligand Binding Interactions (Part 1/2)
A quantitative mass spectrometry-based proteomics method for the large-scale thermodynamic analysis of protein-ligand binding interactions is described here. The methodology utilizes a chemical modification strategy termed, Stability of Proteins from Rates of Oxidation (SPROX), in combination with ...
ORGANISM(S): Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) 
2014-07-31 | PXD000858 | Pride
Shot-gun proteomics Yeast Cyclosporine a Atp 
ProteomicsCoisolation of peptide pairs for peptide identification and MS/MS-based quantification
SILAC-based metabolic labeling is a widely adopted proteomics approach that enables quantitative comparisons among a variety of experimental conditions. Despite its quantitative capacity, SILAC experiments analyzed with data dependent acquisition (DDA) do not fully leverage peptide pair information ...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-11-03 | PXD033016 | Pride
Ms/ms Yeast Silac Peptide pairs Quantification Comet 
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