Article

Starfysh reveals heterogeneous spatial dynamics in the breast tumor microenvironment

2022-11-24

Abstract excerpt

Spatially-resolved gene expression profiling provides valuable insight into tissue organization and cell-cell crosstalk; however, spatial transcriptomics (ST) lacks single-cell resolution. Current ST analysis methods require single-cell RNA sequencing data as a reference for a rigorous interpretation of cell states and do not utilize associated histology images. Significant sample variation further complicates the...

Topics

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

Identifiers and source

Literature Corpus work: 5583cd83-6bb0-5c5f-9210-3888e9dcc3d3
DOI: 10.1101/2022.11.21.517420

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Starfysh reveals heterogeneous spatial dynamics in the breast tumor microenvironmentDOI 10.1101/2022.11.21.517420Read

Pan-cancer virtual spatial transcriptomics from routine histology with PhoenixSemantic proximity Read

LYNX: a deep generative model for linking spatial dynamics and cell interactions in multimodal spatial dataSemantic proximity Read

AAnet resolves a continuum of spatially-localized cell states to unveil tumor complexitySemantic proximity Read

CellTFusion: a transcriptional regulatory network framework for the identification of functional multicellular states from bulk RNA-seq dataSemantic proximity Read

Deciphering the spatial landscape and plasticity of immunosuppressive fibroblasts in breast cancerSemantic proximity Read

AI-Driven Spatial Transcriptomics Unlocks Large-Scale Breast Cancer Biomarker Discovery from HistopathologySemantic proximity Read

Generalisable tissue-wide molecular reconstruction from histologySemantic proximity Read

BayesTME: A unified statistical framework for spatial transcriptomicsSemantic proximity Read

OmniCell: Unified Foundation Modelling of Single-Cell and Spatial Transcriptomics for Cellular and Molecular InsightsSemantic proximity Read

Inferring cellular communication through mapping cells in space using Tangram 2Semantic proximity Read

NicheScope: Identifying Multicellular Niches and Niche-Regulated Cell States in Spatial TranscriptomicsSemantic proximity Read

SpottedPy quantifies relationships between spatial transcriptomic hotspots and uncovers environmental cues of epithelial-mesenchymal plasticity in breast cancerSemantic proximity Read