PXD026366-1
PXD026366 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Rapid and Sensitive Detection of SARS-CoV-2 Infection Using Quantitative Peptide Enrichment Analysis |
Description | Reliable, 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. |
HostingRepository | PanoramaPublic |
AnnounceDate | 2021-11-15 |
AnnouncementXML | Submission_2021-11-15_10:00:37.972.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Andreas Hober |
SpeciesList | scientific name: Severe acute respiratory syndrome coronavirus 2; NCBI TaxID: 2697049; scientific name: Homo sapiens; NCBI TaxID: 9606; |
ModificationList | Label:13C(6)15N(4) |
Instrument | Xevo TQ-XS |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2021-05-31 06:43:27 | ID requested | |
⏵ 1 | 2021-11-15 10:00:38 | announced |
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 | |
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contact affiliation | Science for Life Laboratory, Department of Protein Science (KTH), Stockholm, Sweden |
contact email | fredrik.edfors@scilifelab.se |
lab head | |
Andreas Hober | |
contact affiliation | Science for Life Laboratory, Department of Protein Science (KTH), Stockholm, Sweden |
contact email | andreas.hober@scilifelab.se |
dataset submitter |
Full Dataset Link List
Panorama Public dataset URI |