GSM7090366: SpPat15_Affected1, spatial RNA-seq; Homo sapiens; OTHER
Spatial transcriptomics was performed on three patient samples using the Visium Spatial Gene Expression Slide & Reagent kit (10X Genomics). The tissue permeabilization conditions were optimized using Visium Spatial Tissue Optimization Slide & Reagent kit (10X Genomics).  Fresh skin punch biopsies were frozen in OCT blocks and stored at −80 °C until sectioning. For each patient two sections for lesional tissue and one section from non lesional tissue were taken at 10 mm thickness. The sections were then mounted onto capture areas marked on Visium slides. All the steps including hematoxylin and eosin (H&E) staining of the slides, bright-field image capture, tissue permeabilization (30 minutes), cDNA amplification (16 cycles) and library generation were done following the manufacturer's protocol. The Libraries were sequenced in house using the recommended 28-10-10-120 cycle read setup on the Illumina HiSeq2500 platform. spatial RNA-seq (Visium)