Spatial Transcriptomics Thrives on New Approaches

Marx V. Method of the year: spatially resolved transcriptomics. Nature Methods 18:9–14 (2021).

Li X. , Wang C-Y . From bulk, single-cell to spatial RNA sequencing. International Journal of Oral Science, 13(1):36. (2021).

Borm L.E. , Albiach A.M. , Mannens C.C.A , et al. Scalable in situ single-cell profiling by electrophoretic capture of mRNA. bioRxiv (2022). doi: https://doi.org/10.1101/2022.01.12.476082

Winkler E.A. , Kim C.N. , Ross J.M. , et al. A single-cell atlas of the normal and malformed human brain vasculature. Science, 375(6584): eabi7377. (2022).

Garcia-Alonso L. , Handfield L-F. , Roberts K. , et al. Mapping the temporal and spatial dynamics of the human endometrium in vivo and in vitro. Nature, 53:1698–1711. (2021).

Tavares-Ferreira D. , Shiers S. , Ray P.R. , et al. Spatial transcriptomics of dorsal root ganglia identifies molecular signatures of human nociceptors. Science Translational Medicine, 14(632):eabj8186. (2022).

Dikshit A. , Zong H. , Anderson C. , et al. Simultaneous visualization of RNA and protein expression in tissue using a combined RNAscope™ in situ hybridization and immunofluorescence protocol. Methods in Molecular Biology, 2148:301–312. (2020).

Emaneul G. , He J . Using MERSCOPE to generate a cell atlas of the mouse brain that includes lowly expressed genes. Microscopy Today 29(6):16–19. (2021).

Bao F. , Deng Y. , Wan S. , et al. Integrative spatial analysis of cell morphologies and transcriptional states with MUSE. Nature Biotechnology doi: 10.1038/s41587-022-01251-z (online ahead of print) (2022).

Zeng Z. , Li Y. , Li Y. , et al. Statistical and machine learning methods for spatially resolved transcriptomics data analysis. Genome Biology, 23:83. (2022).

G. Zhao E. , Stone M.R. , Ren X. , et al. Spatial transcriptomics at subspot resolution with BayesSpace. Nature Biotechnology, 39:1375–1384. (2021).

Chelebian E. , Avenel C. , Kartasalo K. , et al. Morphological features extracted by AI associated with spatial transcriptomics in prostate cancer. Cancers (Basel), 13(19):4837 (2021).

Yoosuf N. , Navarro J.F. , Salmén F . et al. Identification and transfer of spatial transcriptomics signatures for cancer diagnosis. Breast Cancer Research, 22, 6 (2020).