PXD048186

PXD048186 is an original dataset announced via ProteomeXchange.

Title	The development of a novel zeolite-based assay for efficient and deep plasma proteomic profiling
Description	Plasma proteins are considered to be the most informative source of biomarkers for disease diagnosis and monitoring. Mass spectrometry (MS)-based proteomics has been applied to discover biomarkers in plasma, but the complexity of plasma proteins and the extremely large dynamic range of protein abundances make the application of plasma proteomics in the clinic a great challenge. We have designed and synthesized zeolite-based nanoparticles for the depletion of high-abundant plasma proteins in plasma. This novel plasma proteomic assay is capable of consistently detecting around 3000 plasma proteins in a 45-minute gradient. Compared to neat and depleted plasma, the plasma proteins identified by our assay show distinct biological profile, which is validated in several public datasets. A pilot investigation of the proteomic profile of hepatocellular carcinoma (HCC) cohort identified 15 promising protein features, highlighting the diagnostic value of plasma proteome in distinguishing HCC from healthy individuals. Furthermore, this assay can be easily integrated with all current downstream protein profiling methods and potentially extended to other biofluids. In conclusion, we have established a robust and efficient plasma proteomic assay with unprecedented identification depths, paving the way for the translation of plasma proteomics into clinical applications.
HostingRepository	PRIDE
AnnounceDate	2024-05-23
AnnouncementXML	Submission_2024-05-23_00:06:29.252.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jingnan Huang
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	2024-01-01 00:30:50	ID requested
⏵ 1	2024-05-23 00:06:30	announced

Li N, Huang J, He S, Zheng Q, Ye F, Qin Z, Wang D, Xiao T, Mao M, Zhou Z, Tang T, Zhang L, Wang X, Wang Y, Lyu Y, Liu L, Dai L, Wang J, Guan J, The development of a novel zeolite-based assay for efficient and deep plasma proteomic profiling. J Nanobiotechnology, 22(1):164(2024) [pubmed]

10.1186/s12951-024-02404-9;

ProteomeXchange project tag: Cancer (B/D-HPP)

submitter keyword: Plasma, Proteomic, Protein corona, Zeolite

Jian Guan
contact affiliation	Department of Radiation Oncology, Nanfang Hospital, Southern Medical University
contact email	jingnan_huang@outlook.com
lab head
Jingnan Huang
contact affiliation	Department of Geriatrics, and Shenzhen Clinical Research Centre for Geriatrics, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University; The First Affiliated Hospital, Southern University of Science and Technology), Shenzhen, 518020, Guangdong, China
contact email	jingnan_huang@outlook.com
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/2024/05/PXD048186

PRIDE project URI

• PRIDE
  1. PXD048186
     1. Label: PRIDE project
     2. Name: The development of a novel zeolite-based assay for efficient and deep plasma proteomic profiling