PXD073228

PXD073228 is an original dataset announced via ProteomeXchange.

Title	Integrated Protein Precipitation-SPE Workflow for Deep Top-Down Proteomic Analysis of Human Serum
Description	Deep top-down proteomic analysis of human serum is challenged by the extreme dynamic range of protein abundances and significant matrix interference. Here, we establish an integrated protein precipitation and solid-phase extraction (PP-SPE) workflow to overcome these challenges. We systematically investigated how precipitant chemistry and sorbent selection influence proteoform recovery. Our findings reveal that organic solvents (e.g., ACN, acetone) reduce the dielectric constant, preferentially precipitating large, acidic, and hydrophobic proteoforms, whereas inorganic salts (e.g., ammonium sulfate) function via ion hydration and dehydration, leading to a distinct size-selective precipitation. The optimized workflow, utilizing Oasis PRiME HLB sorbent, identified an average of 1,138 proteoforms and 155 proteins per condition, demonstrating superior sensitivity compared to conventional C18- or silica-based methods. In total, 5,728 proteoforms were identified, establishing one of the most extensive serum top-down proteomic datasets reported to date, with a high proportion of confident identifications (1,197 proteoforms with E-value < 10⁻³). Our study establishes PP-SPE as a robust, tunable, and highly effective strategy for deep serum proteoform profiling, providing a practical and accessible foundation for biomarker discovery at proteoform level.
HostingRepository	iProX
AnnounceDate	2026-01-17
AnnouncementXML	Submission_2026-01-19_00:17:46.521.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ning Liu
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	2026-01-19 00:17:04	ID requested
⏵ 1	2026-01-19 00:17:47	announced

Dataset with its publication pending

submitter keyword: top-down proteomics serum proteomics sample preparation protein precipitation solid-phase extraction (SPE) proteoform human serum biomarker discovery

Fangjun Wang
contact affiliation	Dalian Institute of Chemical Physics, Chinese Academy of Sciences
contact email	wangfj@dicp.ac.cn
lab head
Ning Liu
contact affiliation	Dalian Institute of Chemical Physics, Chinese Academy of Sciences
contact email	1162837116@qq.com
dataset submitter

iProX dataset URI