PXD044173

PXD044173 is an original dataset announced via ProteomeXchange.

Title	A plasma proteomic exploration in the thromboembolic field
Description	Background: The elevated risk on and health burden of thromboembolic events necessitates development of blood-based patient risk monitoring. Objective: We explored the potential of mass spectrometry-based plasma proteomics to provide insights into underlying plasma protein signatures with treatment and occurrence of thromboembolic events. Method: Utilizing a high-throughput, data-independent acquisition, discovery-based proteomics workflow we analysed 434 plasma proteomes from different groups of individuals with elevated risk of thromboembolic events, including individuals I) on vitamin K-antagonists (VKA), II) with a prior venous thromboembolism, III) with acute cerebral venous sinus thrombosis (CVST) and IV) with SARS-CoV-2 infection. Plasma protein levels measured with MS were correlated with international prothrombin time ratio (INR) and conventional clinical laboratory measurements. Plasma profile differences between different groups were assessed using principal component analysis, moderated t-test and clustering analysis. Results: Plasma protein levels were in agreement with conventional clinical laboratory parameters, including albumin and fibrinogen. In addition, levels of vitamin K-dependent proteins inversely correlated with INR. In the individual retrospective studies, we found decreased levels of vitamin K-dependent coagulation proteins in patients on VKAs, alterations in inflammatory signatures among CVST patients and a distinctive signature indicative of SARS-CoV-2 infection. However, no protein signature associated with a thromboembolic event could be identified neither in individual nor combined retrospective studies. Conclusion: Although VKA treatment- and disease-specific signatures were captured, our study highlights that the challenges of discovering biomarkers in patients at risk of thromboembolic events lie in the heterogeneity of individual plasma profiles in relation to treatment and etiology.
HostingRepository	PRIDE
AnnounceDate	2025-05-06
AnnouncementXML	Submission_2025-05-06_10:34:59.227.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	iris Kreft
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-07-28 04:44:18	ID requested
⏵ 1	2025-05-06 10:35:00	announced

Smit ER, Kreft IC, Camilleri E, Burggraaf-van Delft JLI, van Rein N, van Vlijmen BJM, Hulshof AM, van Bussel BCT, van Rosmalen F, van der Zwaan C, van de Berg T, Henskens Y, Ten Cate H, Coutinho JM, Kruip MJHA, Eikenboom JJC, Hoogendijk AJ, Cannegieter SC, van den Biggelaar M, Arbous MS, van den Berg BM, Cannegieter S, Cobbaert CM, van der Does AM, van Dongen JJ, Eikenboom J, Feltkamp MC, Geluk A, Goeman JJ, Giera M, Hankemeier T, Heemskerk MH, Hiemstra PS, Hokke CH, Janse JJ, Jochems SP, Joosten SA, Kikkert M, Lamont L, Manni, ë, n J, Ottenhoff TH, Pongracz T, Del Prado MR, Roestenberg M, Roukens AH, Smits HH, Snijder EJ, Staal FJ, Trouw LA, Tsonaka R, Verhoeven A, Visser LG, de Vries JJ, van Westerloo DJ, Wigbers J, van der Wijk HJ, van Wissen RC, Wuhrer M, Yazdanbakhsh M, Zlei M, Exploration of the plasma proteomic profile of patients at risk of thromboembolic events. Res Pract Thromb Haemost, 9(2):102713(2025) [pubmed]

10.1016/j.rpth.2025.102713;

submitter keyword: proteomics,thromboembolism, anticoagulation, mass spectrometry

maartje van
contact affiliation	head of department proteomics
contact email	m.vandenbiggelaar@sanquin.nl
lab head
iris Kreft
contact affiliation	Sanquin Reserach
contact email	i.kreft@sanquin.nl
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD044173
     1. Label: PRIDE project
     2. Name: A plasma proteomic exploration in the thromboembolic field