Selected reaction monitoring–based proteomics: workflows, potential, pitfalls and future directions

By Paola Picotti, R. Aebersold. Nature Methods, 2012

1,236 citations recorded by the source corpus.

Subfields: Molecular Biology, Spectroscopy

View Paper: https://www.semanticscholar.org/paper/ebb147c3b755daaa71d0ff38443d6ae9368abcb3

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Citations in the corpus

The Proteomics Identifications (PRIDE) database and associated tools: status in 2013 (2012, background): “Other main approaches are top-down, where intact proteins are measured (2), and targeted proteomics (such as Selected Reaction Monitoring, SRM), where the researcher tries to detect specific proteins in a given sample (3).”
Comet: An open‐source MS/MS sequence database search tool (2013, methodology): “Targeted methods such as SRM [2] have experienced a renaissance and novel data-independent acquisition methods [3–6] are being developed.”
Tight junctions at the blood brain barrier: physiological architecture and disease-associated dysregulation (2012, neutral): “This approach will complement quantitative targeted absolute proteomics (also known as selected reaction monitoring (SRM)), an emerging approach to quantify membrane proteins [179].”
The Skyline Ecosystem: Informatics for Quantitative Mass Spectrometry Proteomics (2017, methodology): “For example, the experiments with the most intensive assay development, scheduled SRM/MRM and PRM type experiments, necessitate selection of target peptides and their transitions (SRM only) prior to acquisition, validation of transitions by MS/MS spectra, potentially optimization of individual param”
Proteomics: Technologies and Their Applications. (2017, methodology): “Common approaches include either the analysis of deep coverage of proteome by shotgun MS or quantitative investigation for a definite set of proteins through targeted MS (138, 139).”
Revisiting biomarker discovery by plasma proteomics (2017, background): “Recently introduced data-independent acquisition strategies more consistently identify peptides across runs (Picotti & Aebersold, 2012; Sajic et al, 2015).”