PXD078338-1

PXD078338 is an original dataset announced via ProteomeXchange.

Title	A Micro-Quantitative and FFPE-compatible Workflow for Im- 2 munohistochemistry-Guided Spatial Proteomic Analysis of 3 Cellular Subpopulations within the Tumor Microenvironment
Description	Understanding the spatial proteomic landscape of human tumors is essential for dissecting cellular heterogeneity and microenvironmental interactions in cancer biology. Traditional bulk proteomic approaches, however, obscure spatial information and average out signals from distinct cell populations. Here, we present a detailed and reproducible micro-quantitative protocol for spatially resolved proteomic analysis of specific cellular subpopulations isolated from immunohistochemistry (IHC)–labeled formalin-fixed paraffin-embedded (FFPE) tissue sections using laser microdissection (LMD). By combining IHC staining to visually define phenotypically distinct cells within preserved tissue architecture and precise LMD capture, approximately 2000 target cells can be isolated per sample for downstream proteomic quantification. Despite the ultra-low input, optimized lysis and digestion steps ensure consistent peptide recovery and highly reproducible label-free LC–MS/MS data across replicates. Integrating immunohistochemistry staining-guided spatial sampling with ultrasensitive quantitative proteomics, this workflow enables reliable cell-type-specific profiling directly within human tumor tissues. The protocol bridges histopathology and proteomics, offering a practical framework for translational research exploring spatial protein signatures and tumor microenvironmental heterogeneity.
HostingRepository	iProX
AnnounceDate	2026-05-14
AnnouncementXML	Submission_2026-05-14_02:29:54.082.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Wenmin Tian
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2026-05-14 02:29:31	ID requested
⏵ 1	2026-05-14 02:29:54	announced

Dataset with its publication pending

submitter keyword: spatial proteomic,laser microdissection (LMD),formalin-fixed paraffin-embedded (FFPE)

Yang Chen
contact affiliation	The Center for Precision Medicine Multi-omics Research (CPMMR)
contact email	chenyang1816185048@bjmu.com
lab head
Wenmin Tian
contact affiliation	The Center for Precision Medicine Multi-omics Research (CPMMR)
contact email	tianwenmin2019@126.com
dataset submitter

iProX dataset URI