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Reproducible protein quantitation of 270 human proteins at increased depth using nanoparticle-based fractionation and reaction monitoring mass spectrometry with stable isotope-labelled internal standards

ABSTRACT: 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 additional 44% of protein targets (median) as well as improved reproducibility compared to a traditional proteomic workflow with no fractionation (median 8.3% vs. 13.1% CV). As the Proteograph technology gains popularity, establishing Proteograph-specific protein reference ranges and comparisons to methods like ELISA and LC/MRM-MS may be explored to enable absolute quantification of plasma proteins based on Proteograph data.

ORGANISM(S): Homo Sapiens

SUBMITTER: Claudia Gaither

PROVIDER: PXD053704 | panorama | Mon Feb 17 00:00:00 GMT 2025

REPOSITORIES: PanoramaPublic

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Reproducible protein quantitation of 270 human proteins at increased depth using nanoparticle-based fractionation and multiple reaction monitoring mass spectrometry with stable isotope-labelled internal standards.

Gaither Claudia C Popp Robert R Gajadhar Aaron S AS Borchers Christoph H CH

The Analyst 20250113 2

Here we show that when using a mix of 274 light synthetic peptide standards (NAT) as surrogates for 270 human plasma proteins, as well as stable isotope-labelled standards (SIS) as normalizers (both from MRM Proteomics Inc.) for targeted quantitative analysis by liquid chromatography multiple reaction monitoring mass spectrometry (LC/MRM-MS), the Seer Proteograph™ platform allowed for the enrichment and absolute quantitation of up to an additional 62 targets (median) compared to two standard pro ...[more]

PMID: 39670628

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Dataset Information

Reproducible protein quantitation of 270 human proteins at increased depth using nanoparticle-based fractionation and reaction monitoring mass spectrometry with stable isotope-labelled internal standards

Publications

Reproducible protein quantitation of 270 human proteins at increased depth using nanoparticle-based fractionation and multiple reaction monitoring mass spectrometry with stable isotope-labelled internal standards.

Similar Datasets

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