GSM9676283: 26_rHA protein vaccine, Follicular, D1; Mus musculus; OTHER
Injection site muscle and draining lymph nodes were harvested, formalin-fixed, paraffin-embedded (FFPE), and sectioned for spatial transcriptomic analysis. For GeoMx DSP profiling, FFPE sections were deparaffinised, subjected to antigen retrieval and proteinase K digestion according to the manufacturer's protocol for the GeoMx Whole Transcriptome Atlas assay. Regions of interest were selected based on guidance of morphology marker staining and histological evaluation, followed by UV photocleavage of indexing oligonucleotides for collection and sequencing. For GeoMx DSP samples, photocleaved oligonucleotide tags released from selected regions of interest were collected and used for library preparation according to the NanoString GeoMx DSP Whole Transcriptome Atlas workflow. Sequencing libraries were generated by PCR amplification with sample-specific Illumina i5 and i7 dual-index primers, followed by purification and quantification prior to next-generation sequencing.