Integrated workflow for analysis of immune enriched spatial proteomic data with IMmuneCite.

ABSTRACT: Spatial proteomics enable detailed analysis of tissue at single cell resolution. However, creating reliable segmentation masks and assigning accurate cell phenotypes to discrete cellular phenotypes can be challenging. We introduce IMmuneCite, a computational framework for comprehensive image pre-processing and single-cell dataset creation, focused on defining complex immune landscapes when using spatial proteomics platforms. We demonstrate that IMmuneCite facilitates the identification of 32 discrete immune cell phenotypes using data from human liver samples while substantially reducing nonbiological cell clusters arising from co-localization of markers for different cell lineages. We established its versatility and ability to accommodate any antibody panel and different species by applyin

SUBMITTER: Barbetta A 

PROVIDER: S-EPMC11920390 | biostudies-literature | 2025 Mar

REPOSITORIES: biostudies-literature