Abstract

The rapid development of spatial transcriptomics (ST) techniques has allowed the measurement of transcriptional levels across many genes together with the spatial positions of cells. This has led to an explosion of interest in computational methods and techniques for harnessing both spatial and transcriptional information in analysis of ST datasets. The wide diversity of approaches in aim, methodology and technology for ST provides great challenges in dissecting cellular functions in spatial contexts. Here, we synthesize and review the key problems in analysis of ST data and methods that are currently applied, while also expanding on open questions and areas of future development.

Walker et al. review methods used to analyse spatial transcriptomics data and discuss open questions and areas of future development.

Details

Title
Deciphering tissue structure and function using spatial transcriptomics
Author
Walker, Benjamin L 1   VIAFID ORCID Logo  ; Cang Zixuan 1   VIAFID ORCID Logo  ; Ren Honglei 1 ; Bourgain-Chang, Eric 2 ; Nie Qing 3   VIAFID ORCID Logo 

1  University of California Irvine, The NSF-Simons Center for Multiscale Cell Fate Research, Irvine, USA (GRID:grid.266093.8) (ISNI:0000 0001 0668 7243); University of California Irvine, Department of Mathematics, Irvine, USA (GRID:grid.266093.8) (ISNI:0000 0001 0668 7243) 
2  University of California Irvine, Department of Mathematics, Irvine, USA (GRID:grid.266093.8) (ISNI:0000 0001 0668 7243) 
3  University of California Irvine, The NSF-Simons Center for Multiscale Cell Fate Research, Irvine, USA (GRID:grid.266093.8) (ISNI:0000 0001 0668 7243); University of California Irvine, Department of Mathematics, Irvine, USA (GRID:grid.266093.8) (ISNI:0000 0001 0668 7243); University of California Irvine, Department of Developmental and Cell Biology, Irvine, USA (GRID:grid.266093.8) (ISNI:0000 0001 0668 7243) 
Publication year
2022
Publication date
2022
Publisher
Nature Publishing Group
e-ISSN
23993642
Source type
Scholarly Journal
Language of publication
English
DOI
https://doi.org/10.1038/s42003-022-03175-5
ProQuest document ID
2637832510
Copyright
© The Author(s) 2022. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.