Fig. 1: Spatial-histopathological examination-linked epitranscriptomics converged to transcriptomics with sequencing (Select-seq) enables full-length spatial transcriptomics and epitranscriptomics at single-nucleotide resolution.

a Schematic of the Select-seq protocol. Selective isolation of target regions in tumour sections was performed using a near-infrared pulsed laser following immunofluorescence staining. Full-length transcripts extracted from each targeted region are tagged with barcodes used for tracking the target region. Multi-modal analysis of the full-length transcriptome is connected with the spatial and staining information using barcodes included in the sequencing data. b Targets selected from a triple-negative breast cancer (TNBC) patient tumour section. The tissue was stained with Hoechst dye and anti-ALDH1 and CD44 antibodies (scale bar, 100 μm). We obtained the above results from a single tissue section. c Transcriptomics and epitranscriptomics of target region 72 containing 5–30 cells at single-nucleotide resolution and its gene expression profiles, transcript isoforms, B cell receptor sequences, and adenosine-to-inosine (A-to-I) editing events. d Each transcriptomic and epitranscriptomic data point was mapped to the tissue based on the barcodes.