PXD019300-3

PXD019300 is an original dataset announced via ProteomeXchange.

Title	SARS-CoV-2_PRM_SRM_targeted_acquisitions
Description	The current outbreak of severe acute respiratory syndrome associated with coronavirus 2 (SARS-CoV-2) is pressing public health systems around the world, and large population testing is a key step to control this pandemic disease. We developed a high-throughput targeted proteomics assay to detect SARS-CoV-2 proteins directly from nasopharyngeal and oropharyngeal swabs. Sample preparation was fully automated by using a modified magnetic particle-based proteomics approach implemented on a robotic liquid handler. The use of turbulent flow chromatography included four times multiplexed on-line sample cleanup and liquid chromatography separation. Mass spectrometry detection of nucleoprotein peptides was achieved within 2.5 min, enabling the analysis of more than 500 samples per day. The method was validated qualitatively (Tier 3) and quantitatively (Tier 1) using 855 specimens previously analyzed by real-time RT-PCR and was able to detect up to 84% of positive cases with up to 97% of specificity. The strategy here presented has high sample stability and should be considered as an option for testing in large populations.
HostingRepository	PanoramaPublic
AnnounceDate	2020-12-07
AnnouncementXML	Submission_2020-12-07_13:37:09.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Valdemir Carvalho
SpeciesList	scientific name: Severe acute respiratory syndrome coronavirus 2; NCBI TaxID: 2697049;
ModificationList	Label:15N(3); Label:15N(1); Label:15N(2)
Instrument	Q Exactive HF-X; TSQ Altis

Revision	Datetime	Status	ChangeLog Entry
0	2020-05-19 20:28:41	ID requested
1	2020-05-20 20:16:54	announced
2	2020-09-16 09:39:17	announced	: Added quantitative validation experiments
⏵ 3	2020-12-07 13:37:10	announced	: Added PubMed ID

Cardozo KHM, Lebkuchen A, Okai GG, Schuch RA, Viana LG, Olive AN, Lazari CDS, Fraga AM, Granato CFH, Pint, ã, o MCT, Carvalho VM, Establishing a mass spectrometry-based system for rapid detection of SARS-CoV-2 in large clinical sample cohorts. Nat Commun, 11(1):6201(2020) [pubmed]

submitter keyword: SARS-CoV-2, COVID-19, targeted proteomics

Valdemir Carvalho
contact affiliation	Division of Research and Development, Fleury Group, 04344-070, São Paulo, SP, Brazil
contact email	melechco@gmail.com
lab head
Valdemir Carvalho
contact affiliation	Division of Research and Development, Fleury Group, 04344-070, São Paulo, SP, Brazil
contact email	melechco@gmail.com
dataset submitter

Panorama Public dataset URI