Publication: DESpace: spatially variable gene detection via differential expression testing of spatial clusters
DESpace: spatially variable gene detection via differential expression testing of spatial clusters
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Cai, P., Robinson, M. D., & Tiberi, S. (2024). DESpace: spatially variable gene detection via differential expression testing of spatial clusters. Bioinformatics, 40, btae027. https://doi.org/10.1093/bioinformatics/btae027
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Motivation: Spatially resolved transcriptomics (SRT) enables scientists to investigate spatial context of mRNA abundance, including identifying spatially variable genes (SVGs), i.e., genes whose expression varies across the tissue. Although several methods have been proposed for this task, native SVG tools cannot jointly model biological replicates, or identify the key areas of the tissue affected by spatial variability. Results: Here, we introduce DESpace, a framework, based on an original application of existing methods, to discover
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Cai, P., Robinson, M. D., & Tiberi, S. (2024). DESpace: spatially variable gene detection via differential expression testing of spatial clusters. Bioinformatics, 40, btae027. https://doi.org/10.1093/bioinformatics/btae027
