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ProteomicsSysQuan: repurposing SILAC mice for affordable absolute quantitation of the human proteome
Relative quantitation, used by most MS-based proteomics laboratories to determine protein fold-changes, requires that samples are processed and analyzed together to enable best comparability through minimizing batch differences. This limits the detection of subtle but relevant changes in heterogeneo...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2025-06-16 | PXD057266 | Pride
Proteomics Silac Stable isotope Targeted proteomics Absolute quantitation 
Proteomics2020_Human BAK125 kit _Room Temperature
We assessed the impact of leaving a lyophilized mixture consisting of 125 peptides at room temperature for up to 20 days, and we assessed the effect on the quantitative performance of multiple reaction monitoring-MS (MRM-MS) assays. The findings suggest that there are no significant differences in t...
ORGANISM(S): Homo Sapiens 
2022-09-05 | PXD028179 | panorama
ProteomicsRapid UPF1 depletion illuminates the temporal dynamics of the NMD-regulated human transcriptome
UPF1 is a multi-domain RNA helicase that constantly monitors the transcriptome by non-specifically binding to mRNAs, dissociating from non-target transcripts, and initiating degradation on selected target RNAs via multiple proposed pathways such as nonsense-mediated decay (NMD). NMD is a translation...
ORGANISM(S): Homo sapiens (Human) 
2025-09-03 | PXD061797 | Pride
Mrna degradation Nmd Gene expression Nonsense-mediated mrna decay Upf1 Translation 
ProteomicsReproducible protein quantitation of 270 human proteins at increased depth using nanoparticle-based fractionation and reaction monitoring mass spectrometry with stable isotope-labelled internal standards
When using a mix of 274 light synthetic peptide standards as surrogates for 270 human plasma proteins, as well as stable isotope-labelled standards as normalizers for targeted quantitative analysis by LC/MRM-MS, the Seer Proteograph allowed for the enrichment and absolute quantitation of up to an ad...
ORGANISM(S): Homo Sapiens 
2025-02-17 | PXD053704 | panorama
ProteomicsWhole blood peptide assay stability by MRM-MS
Here, we investigate how delays in plasma processing affect peptide-centric “bottom-up” proteomics, using multiple reaction monitoring mass spectrometry (MRM-MS). We used validated Tier 2-level assays for proteotypic peptide surrogates of 270 human proteins to analyze plasma generated from whole bl...
ORGANISM(S): Homo Sapiens 
2022-08-18 | PXD027957 | panorama
ProteomicsTargeted MS based multi-omic analysis of blood plasma from COVID-19 patients to predict survival
Molecular signatures to discriminate patients based on risk of severe disease and mortality from COVID-19 infection are urgently required by the global medical community. Although non-targeted methods are useful for comprehensive ‘omic coverage, targeted MS-based approaches generally provide higher ...
ORGANISM(S): Homo Sapiens 
2022-08-18 | PXD027959 | panorama
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