PXD063473-1

PXD063473 is an original dataset announced via ProteomeXchange.

Title	Proteomic profiling of plasma and serum
Description	Human blood contains proteins secreted by various organs, but there is no consensus on whether serum or plasma is preferable for proteome studies. Data-independent acquisition (DIA) mass spectrometry (MS)-based proteomics has proven to be a powerful tool, capable of quantifying thousands of proteins in a single LC-MS/MS experiment, facilitating identification of potential marker and elucidation of biological processes. Here, we profiled the proteome data of ten paired plasma and serum samples in the initial sample set. Functional analysis revealed similarities and differences in biological functions, and the preference for different organs between serum and plasma. Furthermore, comparative proteomic analysis highlighted the different proteomic characteristics, with plasma-overrepresented pathways related to the phagosome and immune while serum-overrepresented pathways were associated with amino acid metabolism, which were further validated by the follow-up sample set composed of eight paired plasma and serum samples. We have detected potential markers in plasma and serum for various cancers and explored their association with prognosis using data from the TCGA pan-cancer cohort and HPA database. Further assessment is required to validate the reproducibility of quantification for these markers. Overall, this study highlights the commonality and specificity of plasma and serum at the molecular level, underscoring their respective utilities in biological exploration and clinical applications.
HostingRepository	iProX
AnnounceDate	2025-04-29
AnnouncementXML	Submission_2025-04-30_00:10:14.120.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yan Li
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-04-30 00:09:59	ID requested
⏵ 1	2025-04-30 00:10:14	announced

Dataset with its publication pending

submitter keyword: proteome, plasma, serum

Chen Ding
contact affiliation	Fudan University
contact email	chend@fudan.edu.cn
lab head
Yan Li
contact affiliation	Fudan University
contact email	yanlee2020@126.com
dataset submitter

iProX dataset URI