PXD070012

PXD070012 is an original dataset announced via ProteomeXchange.

Title	A simple and flexible strategy for single-cell proteomic analysis based on protein immobilization and digestion tube reactor
Description	Mass spectrometry-based single-cell proteomics (SCP) has witnessed rapid development over the past 10 years. However, the current preprocessing methodologies mostly require either proficient operation skills or reliance on costly consumables and advanced instruments, which hinders the widespread application of deep single-cell proteomics. To address this challenge, we have developed a protein immobilization-based microliter reactor (PIBMR), to achieve streamlined and low-cost protein preprocessing for multiple single-cell samples within one hour using common laboratory consumables, and the processed samples are directly compatible with commercial liquid chromatography-mass spectrometry (LC-MS/MS) system. The MiSPIDR workflow integrates the protein processing steps prior to LC-MS/MS analysis into two steps, which requires only microliter-level precision in liquid handling. Additionally, the workflow expands the range of lysis reagents available by employing a covalent immobilization strategy, achieving low-loss protein purification. Using the MiSPIDR workflow in DIA mode, 3732-4651, 2290-3808, and 3423-4469 protein groups were identified in single A549 cells (n=16), HeLa cells (n=16), and MCF-7 cells (n=16), respectively. Furthermore, utilizing the MiSPIDR workflow, we investigated the proteomic heterogeneity of cervical cancer cells at different apoptotic stages following paclitaxel treatment at the single-cell level, demonstrating the potential of single-cell proteomics in addressing biological problems.
HostingRepository	iProX
AnnounceDate	2025-10-28
AnnouncementXML	Submission_2025-10-29_00:06:03.151.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Wenjia Zhang
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2025-10-29 00:05:47	ID requested
⏵ 1	2025-10-29 00:06:03	announced

Dataset with its publication pending

submitter keyword: single cell proteomics

Xiangmin Zhang
contact affiliation	Fudan University
contact email	xmzhang@fudan.edu.cn
lab head
Wenjia Zhang
contact affiliation	Fudan University
contact email	23110220108@m.fudan.edu.cn
dataset submitter

iProX dataset URI