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PXD026366 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleRapid and Sensitive Detection of SARS-CoV-2 Infection Using Quantitative Peptide Enrichment Analysis
DescriptionReliable, robust, large-scale molecular testing for SARS-CoV-2 is essential for monitoring the ongoing Covid-19 pandemic. We have developed a scalable analytical approach to detect viral proteins based on peptide immunoaffinity enrichment combined with liquid chromatography - mass spectrometry (LC-MS). This is a multiplexed strategy, based on targeted proteomics analysis and read-out by LC-MS, capable of precisely quantifying and confirming the presence of SARS-CoV-2 in PBS swab media from combined throat/nasopharynx/saliva samples. The results reveal that the levels of SARS-CoV-2 measured by LC-MS correlate well with their corresponding RT-PCR readout. The analytical workflow shows similar turnaround times as regular RT-PCR instrumentation with quantitative readout of viral proteins corresponding to cycle thresholds (Ct) equivalents ranging from 20 to 35. Using RT-PCR as a reference, we demonstrate that the LC-MS-based method has 100% specificity and 86% sensitivity when analyzing clinical samples collected from asymptomatic patients. These results suggest that a scalable analytical method based on LC-MS has a place in future pandemic preparedness centers to complement current virus detection technologies.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterAndreas Hober
SpeciesList scientific name: Severe acute respiratory syndrome coronavirus 2; NCBI TaxID: 2697049; scientific name: Homo sapiens; NCBI TaxID: 9606;
InstrumentXevo TQ-XS
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-05-31 06:43:27ID requested
12021-11-15 10:00:38announced
Publication List
Hober A, Tran-Minh KH, Foley D, McDonald T, Vissers JP, Pattison R, Ferries S, Hermansson S, Betner I, Uhl, é, n M, Razavi M, Yip R, Pope ME, Pearson TW, Andersson LN, Bartlett A, Calton L, Alm JJ, Engstrand L, Edfors F, Rapid and sensitive detection of SARS-CoV-2 infection using quantitative peptide enrichment LC-MS analysis. Elife, 10():(2021) [pubmed]
Keyword List
submitter keyword: LC-MS, MRM, SARS-Cov-2, NCAP, RT-PCR, digest, peptide, SISCAPA, affinity
Contact List
Fredrik Edfors
contact affiliationScience for Life Laboratory, Department of Protein Science (KTH), Stockholm, Sweden
contact emailfredrik.edfors@scilifelab.se
lab head
Andreas Hober
contact affiliationScience for Life Laboratory, Department of Protein Science (KTH), Stockholm, Sweden
contact emailandreas.hober@scilifelab.se
dataset submitter
Full Dataset Link List
Panorama Public dataset URI