10x Genomics has recently developed the Atera platform for in situ spatial transcriptomics, which enables whole-transcriptome profiling of gene expression in tissue slices by targeting >18,000 genes in each sample.
In collaboration with Prof. Laura Mackay at the Doherty Institute, we were able to profile two human tissues on the Atera platform: duodenum from small intestine, and skin.
Atera platform image courtesy of 10x Genomics
Following tissue processing and in situ transcriptomic profiling, we assessed quality control metrics from these samples. Thanks to the high transcript detection and broad transcriptional coverage of the Atera datasets, we were able to easily apply labeling approaches designed for scRNA-seq data to confidently assign cell types to these tissues. For additional details, see the Atera QC and Labeling section.
To accelerate access to these unprecedented 10x Genomics Atera results, we provide cloud-native data browsers for interactive exploration of duodenum and skin below, with no need for installation of separate applications or downloading of these large datasets:
Human Duodenum Atera Spatial Explorer
Explore > 320,000 cells from human duodenum profiled on the Atera platform.
Explore Duodenum DatasetHuman Skin Atera Spatial Explorer
Explore > 48,000 human skin cells profiled with the Atera platform.
Explore Skin Dataset