Extended Data Fig. 2: snATAC-seq and spatial transcriptomics data analysis.

a, UMAP showing snATAC-seq data for all patients, regions, and clusters. b, Validation of snATAC-seq cell type annotation using snRNA-seq data. Left: UMAP showing the predicted labels for snATAC-seq data. Right:  heatmap showing evaluation results by adjusted rand index (ARI). c, snATAC-seq cell-type proportions of all samples. d, Spearman correlations of cell-type compositions of samples estimated from snRNA-seq and and snATAC-Seq. Box-Whisker plots showing median and IQR (n = 3 for BZ, n = 4 for control, n = 4 for RZ, n = 5 for FZ, and n = 9 for IZ) e, Cell type detection for snRNA-seq and snATAC-seq data across samples. The colour represents in which modality was cell type detected: snRNA-seq and snATAC-seq, snRNA-seq only, or not recovered. f, Transcription factor (TF) binding and TF target expression per major cell type based on the snATAC-seq and snRNA-seq data. g, Overrepresented spatially variable biological processes (myocardium related, immune related and fibrosis related) across regions. Each cell contains the mean adjusted P-value of a hypergeometric test across all spatial transcriptomics samples belonging to each region. h, Spearman correlations of cell-type compositions of samples estimated from spatial transcriptomics and snRNA-seq (left) or snATAC-seq (right). Box-Whisker plots showing median and IQR (n = 3 for BZ, n = 4 for control, n = 4 for RZ, n = 5 for FZ, and n = 9 for IZ). i, GWAS SNP enrichment score across major cell types. j, Visualization of GWAS¹² ll SNP enrichment (left ventricular ejection fraction) in spatial transcriptomics data. In d,h, each spot is a patient sample (n = 3 for borderzone (BZ), n = 4 for controls, n = 6 for fibrotic zone (FZ), n = 9 for ischaemic zone (IZ), n = 5 for remote zone (RZ)). Data are represented as boxplots where the middle line is the median, the lower and upper hinges correspond to the first and third quartiles, the upper whisker extends from the hinge to the largest value no further than 1.5 × IQR from the hinge (where IQR is the inter-quartile range) and the lower whisker extends from the hinge to the smallest value at most 1.5 × IQR of the hinge, while data beyond the end of the whiskers are outlying points that are plotted individually. In a-c the number of spots of the bottom panels correspond to the barplots in the upper panel.