Article

Deep topic modeling of spatial transcriptomics in the rheumatoid arthritis synovium identifies distinct classes of ectopic lymphoid structures

2025-01-10

Abstract excerpt

Single-cell RNA sequencing studies have revealed the heterogeneity of cell states present in the rheumatoid arthritis (RA) synovium. However, it remains unclear how these cell types interact with one another in situ and how synovial microenvironments shape observed cell states. Here, we use spatial transcriptomics (ST) to define stable microenvironments across eight synovial tissue samples from six RA patients an...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: c1949c01-d314-5a7b-bda8-185d9aacab1b
DOI: 10.1101/2025.01.08.631928

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Deep topic modeling of spatial transcriptomics in the rheumatoid arthritis synovium identifies distinct classes of ectopic lymphoid structuresDOI 10.1101/2025.01.08.631928Read

Cellular deconstruction of inflamed synovium defines diverse inflammatory phenotypes in rheumatoid arthritisSemantic proximity Read

Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomicsSemantic proximity Read

SPOTlight: Seeded NMF regression to Deconvolute Spatial Transcriptomics Spots with Single-Cell TranscriptomesSemantic proximity Read

Three-dimensional spatial transcriptomics uncovers cell type localizations in the human rheumatoid arthritis synoviumSemantic proximity Read

Deconstruction of rheumatoid arthritis synovium defines inflammatory subtypes.Semantic proximity Read

Spatial transcriptomics reveals distinct inflammatory and adaptive immune properties of rheumatoid arthritis synovial fibroblastsSemantic proximity Read

The chromatin landscape of pathogenic transcriptional cell states in rheumatoid arthritisSemantic proximity Read

Exploring inflammatory signatures in arthritic joint biopsies with Spatial TranscriptomicsSemantic proximity Read

Spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosisSemantic proximity Read

SPARROW reveals cell states and functions influenced by microenvironment zones in complex tissuesSemantic proximity Read

Image-based spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosisSemantic proximity Read

The Chromatin Landscape of Pathogenic Transcriptional Cell States in Rheumatoid ArthritisSemantic proximity Read