Spatial genomics is a cutting-edge field that combines genomics and spatial analysis to investigate the role of genomic features in disease at single-cell resolution.
The power of single-cell resolutionReferences
One of the additional common features of this disease is the accumulation of non-coding driver mutations during the progression of the disease, giving rise to genomic instability and neoplastic development. In this context, spatial genomics can provide information about the effects of these non-coding changes, as well as the epigenetic modifications that might also affect chromatin organization, promoting the development of cancer.
The investigation conducted by Shah and colleagues was instrumental in advancing the field of spatial biology in this direction. In their work, they aimed to uncover the spatial organization of hippocampus tissues at a cellular level using single-cell gene expression profiles. To achieve that, they employed the cutting-edge 3D multiplexed imaging technique, seqFISH, which allowed them to quantify and cluster up to 249 genes in a staggering 16.
Each method has unique advantages. The Nanostring GeoMX DSP system can detect oligonucleotide RNA probes and labeled antibodies to profile protein spatial distribution in non-small cell lung cancer tissues, identify biomarkers for PD-1 checkpoint blockade treatment outcome, and map cancer-associated fibroblast programs and their proximity to immune infiltrates in pancreatic ductal adenocarcinoma.
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