Kim Thrane

TL;DR: To define the cellular composition and architecture of cutaneous squamous cell carcinoma (cSCC), single-cell RNA sequencing with spatial transcriptomics and multiplexed ion beam imaging from a series of human cSCCs and matched normal skin were combined.

TL;DR: Using spatial transcriptomics to generate gene expression profiles in melanoma lymph node metastases reveals a complex transcriptional landscape in a spatial context, which is essential for understanding the multiple components of tumor progression and therapy outcome.

TL;DR: In this paper , the authors used spatially resolved transcriptomics to infer spatial copy number variations in 120,000 regions across multiple organs, in benign and malignant tissues, and demonstrate that genome-wide copy number variation reveals distinct clonal patterns within tumours and in nearby benign tissue using an organ-wide approach focused on the prostate.

TL;DR: In this article, a method that integrates spatial gene expression data with histological image data from the same tissue section to infer higher-resolution expression maps was proposed, using a deep generative model that characterizes the transcriptome of micrometer-scale anatomical features.

TL;DR: Spatial Isoform Transcriptomics (SiT) is introduced, an explorative method for characterizing spatial isoform and sequence heterogeneity in tissue sections, and it is shown how it can be used to profile isoform expression and sequences heterogeneity in a tissue context.