Clustering and annotation of spatial domain based on gene expression.
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posted on 2025-02-18, 18:46 authored by Shunsuke A. Sakai, Ryosuke Nomura, Satoi Nagasawa, SungGi Chi, Ayako Suzuki, Yutaka Suzuki, Mitsuho Imai, Yoshiaki Nakamura, Takayuki Yoshino, Shumpei Ishikawa, Katsuya Tsuchihara, Shun-Ichiro Kageyama, Riu Yamashita(A) Two-dimensional plot based on UMAP loadings of gene expression of spatial domains. The colors indicate clusters. (B) Spatial distribution of each cluster. (C) H&E image with histological annotations. (D) Dotplot showing markers of cell types and expression patterns of genes associated with tumor subtypes.
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potentially reflect histologydetect histological morphologyobserved tumor vascularizationmetastatic colorectal cancerxlink "> singleskny ): extendingidentify microenvironment featuresdetects spatial domainstumor microenvironmentcancer progressionbreast cancerspatial extensionspatial domainsspatial domaintrajectory estimationsurrounding areastage progressionskny facilitatesskny algorithmskny ),divided basedbased toolkit14 patients
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