Journal: Communications Biology

Article Title: Inflammation-associated molecules in the glomerular-endothelium in mild IgA-nephropathy patients identified by single-cell and spatial transcriptome

doi: 10.1038/s42003-025-08325-z

Figure Lengend Snippet: a Scheme and ( b ) flow diagram for integrated analysis of scRNA-seq and Visium. scRNA-seq single-cell RNA sequencing.

Article Snippet: The sequencing library was prepared using Visium Spatial for FFPE Gene Expression Kit, Human Transcriptome (10x Genomics, Inc., California, U.S.) according to the manufacturer’s instructions (CG000407_Rev_C).

Techniques: RNA Sequencing

Journal: Communications Biology

Article Title: Inflammation-associated molecules in the glomerular-endothelium in mild IgA-nephropathy patients identified by single-cell and spatial transcriptome

doi: 10.1038/s42003-025-08325-z

Figure Lengend Snippet: Spots detected from histological images of normal specimens and IgA-N specimens. a Detected spots classified by a pathologist into the following four regions according to their histological features: cortex, medulla, glomeruli (Glom), and other. b Dot plots showing the expression of glomerular constituent cell marker genes (podo; NPHS1 , mesa; PDGFRA , GE; EHD3 ) in each region. ( c ) UMAP plots of the clusters used for integrated analysis with Visium: GE, Cluster #18; and endothelial cells (Endo) (Endo1, Cluster #2; Endo2, Cluster #13; Endo3, Cluster #15; Endo4, Cluster #17; and Endo5, Cluster #27). Gray dots indicate cells not used for the integrated analysis with Visium. Predictive score of each cell type (scRNA-seq data; X-axis) against each histological annotation (Visium data; Y-axis) of ( d ) normal specimens and ( e ) IgA-N specimens. The dot color represents the scaled predictive score, and the dot size represents the proportion of spots with a predictive score of >0 in each histological annotation. IgA immunoglobulin A, scRNA-seq single-cell RNA sequencing UMPA uniform manifold approximation and projection.

Article Snippet: The sequencing library was prepared using Visium Spatial for FFPE Gene Expression Kit, Human Transcriptome (10x Genomics, Inc., California, U.S.) according to the manufacturer’s instructions (CG000407_Rev_C).

Techniques: Expressing, Marker, RNA Sequencing