PXD024967

PXD024967 is an original dataset announced via ProteomeXchange.

Title	Mass spectrometric analysis of urine from COVID-19 patients for detection of SARS-CoV-2 viral antigen and to study host response
Description	SARS-CoV-2 infection has become a major public health burden and is known to affect many organs with the respiratory system being involved in a majority of cases. Here we undertook a mass spectrometry-based proteomic approach to test whether viral proteins could be detected in urine of patients with COVID-19. Urine samples from 39 patients positive for SARS-CoV-2 by RT-PCR were analyzed by mass spectrometry. We detected peptides from the nucleocapsid protein of the SARS-CoV-2 virus in 12 out of 35 urine samples. A set of five samples each from positive and negative groups were further used to study the host response. In conclusion, we demonstrated the identification of viral antigens in urine using mass spectrometry which further suggests that urine could be a potential source of infection with implications in disease transmission and also the changes in protein composition in urine may provide insights in understanding the disease pathogenesis.
HostingRepository	PRIDE
AnnounceDate	2021-06-08
AnnouncementXML	Submission_2021-06-07_22:18:48.504.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Akhilesh Pandey
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2021-03-23 23:37:44	ID requested
1	2021-06-06 23:17:59	announced
2	2021-06-07 22:15:30	announced	2021-06-08: Updated project metadata.
⏵ 3	2021-06-07 22:18:49	announced	2021-06-08: Updated project metadata.

Chavan S, Mangalaparthi KK, Singh S, Renuse S, Vanderboom PM, Madugundu AK, Budhraja R, McAulay K, Grys TE, Rule AD, Alexander MP, O'Horo JC, Badley AD, Pandey A, Mass Spectrometric Analysis of Urine from COVID-19 Patients for Detection of SARS-CoV-2 Viral Antigen and to Study Host Response. J Proteome Res, 20(7):3404-3413(2021) [pubmed]

ProteomeXchange project tag: Sars-cov-2, Covid-19

submitter keyword: COVID-19 Urine, Quantitative proteomics, Antigen detection, Host response

Akhilesh Pandey
contact affiliation	Department of Laboratory Medicine and Pathology & Center for Individualized Medicine Mayo Clinic Rochester MN 55905, USA
contact email	Pandey.Akhilesh@mayo.edu
lab head
Akhilesh Pandey
contact affiliation	Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, MN 55905
contact email	pandey.akhilesh@mayo.edu
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2021/06/PXD024967

PRIDE project URI

• PRIDE
  1. PXD024967
     1. Label: PRIDE project
     2. Name: Mass spectrometric analysis of urine from COVID-19 patients for detection of SARS-CoV-2 viral antigen and to study host response