PXD040703 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Proteomic analysis of circulating immune cells identifies novel cellular phenotypes associated with COVID-19 severity |
Description | Certain serum proteins, including CRP and D-dimer, have prognostic value in patients with SARS-CoV-2 infection. Nonetheless, these factors are non-specific, and provide limited mechanistic insight into the peripheral blood mononuclear cell (PBMC) populations which drive the pathogenesis of severe COVID-19. To identify novel cellular phenotypes associated with disease progression, we here describe a comprehensive, unbiased analysis of the total and plasma membrane proteomes of PBMCs from a cohort of 40 unvaccinated individuals with SARS-CoV-2 infection, spanning the whole spectrum of disease severity. Combined with RNA-seq and flow cytometry data from the same donors, we define a comprehensive multi-omic profile for each severity level, revealing cumulative immune cell dysregulation in progressive disease. In particular, the cell surface proteins CEACAMs1, 6 and 8, CD177, CD63 and CD89 are strongly associated with severe COVID-19, corresponding to the emergence of atypical CD3+CD4+CD177+ and CD16+CEACAM1/6/8+ mononuclear cells. Utilisation of these markers may facilitate real-time patient assessment by flow cytometry, and identify immune cell populations that could be targeted to ameliorate immunopathology. |
HostingRepository | PRIDE |
AnnounceDate | 2023-03-29 |
AnnouncementXML | Submission_2023-03-29_03:05:43.496.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | MichaelWeekes |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | TMT6plex-126 reporter+balance reagent acylated residue; iodoacetamide derivatized residue |
Instrument | Orbitrap Fusion Lumos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2023-03-08 20:29:27 | ID requested | |
⏵ 1 | 2023-03-29 03:05:43 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: COVID-19, PBMC, cell surface, SARS-CoV-2, plasma membrane, phenotype, biomarker |
Contact List
MichaelWeekes |
contact affiliation | Cambridge Institute for Medical Research, University of Cambridge |
contact email | mpw1001@cam.ac.uk |
lab head | |
MichaelWeekes |
contact affiliation | University of Cambridge |
contact email | mpw1001@cam.ac.uk |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD040703
- Label: PRIDE project
- Name: Proteomic analysis of circulating immune cells identifies novel cellular phenotypes associated with COVID-19 severity