PXD053440

PXD053440 is an original dataset announced via ProteomeXchange.

Title	Serum proteomics for the identification of biomarkers to flag predilection of COVID-19 patients to various organ morbidities
Description	COVID-19 is a pandemic that has affected millions around the world since March 2020. While many patients recovered completely with mild illness, many patients succumbed to various organ morbidities. This heterogeneity in the clinical presentation of COVID-19 infection has posed a challenge to clinicians around the world. It is therefore crucial to identify specific organ-related morbidity for effective treatment and better patient outcomes. we have carried out serum based proteomic experiments to identify protein biomarkers that can flag organ dysfunctions in COVID19 patients. COVID-19 patients were screened and tested at various hospitals across new delhi, India. 110 serum samples from these patients, with and without organ morbidities were collected and annotated based on clinical presentation and treatment history. Of these, 29 samples comprising of heart, lung, kidney, gastrointestinal, liver, and neurological morbidities were considered for the discovery phase of the experiment. Proteins were isolated, quantified, trypsin digested, and the peptides were subjected to mass spectrometric analysis using an Orbitrap Fusion Tribrid Mass Spectrometer (Thermo Fisher Scientific). Data analysis were carried out using Proteome Discoverer software (ver 2.4). Fold change analysis was carried out on MetaboAnalyst (ver 5). Potential biomarker candidates for various organ morbidities were validated using ELISA. KEGG, Reactome, and Wiki Pathway analysis of differentially expressed proteins was carried out using the STRING database. 254 unique proteins were identified across all the samples with a subset of 12-31 differentially expressed proteins (Fold change: X2) in each of the clinical phenotypes. These proteins establish complement and coagulation cascade pathways in the pathogenesis of the organ morbidities. Validation experiments confirm Secreted Protein Acidic and Rich in Cysteine, Cystatin C, and Catalase as potential biomarker candidates that can flag cardiovascular disease, renal disease, and respiratory disease, respectively. Label free serum proteomics shows differential protein expression in COVID-19 patients with morbidity as compared to those without morbidity. The identified biomarker candidates provide an opportunity to develop translational tools to diagnose specific organ morbidities in COVID-19 for efficient patient care.
HostingRepository	PRIDE
AnnounceDate	2025-05-07
AnnouncementXML	Submission_2025-05-06_21:01:12.521.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	GURURAO HARIPRASAD
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2024-06-26 16:10:17	ID requested
⏵ 1	2025-05-06 21:01:13	announced

Rajan MV, Sharma V, Upadhyay N, Murali A, Bandyopadhyay S, Hariprasad G, Serum proteomics for the identification of biomarkers to flag predilection of COVID19 patients to various organ morbidities. Clin Proteomics, 21(1):61(2024) [pubmed]

10.1186/s12014-024-09512-6;

submitter keyword: complement factors,COVID19, clinical proteomics, coagulation factors, organ morbidity, biomarkers, differential protein expression

Gururao Hariprasad
contact affiliation	Deapartment of Biophysics, All India Institute of MedicalSciences, New Delhi, India
contact email	dr.hariprasadg@gmail.com
lab head
GURURAO HARIPRASAD
contact affiliation	Department of Biophysics All India Institute of Medical Sciences New Delhi India
contact email	dr.hariprasadg@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD053440
     1. Label: PRIDE project
     2. Name: Serum proteomics for the identification of biomarkers to flag predilection of COVID-19 patients to various organ morbidities