Padlock Probe-Based Targeted In Situ Sequencing: Overview of Methods and Applications.

Magoulopoulou A, Salas SM, Tiklová K, Samuelsson ER, Hilscher MM, Nilsson M

Annu Rev Genomics Hum Genet - (-) - [2023-04-05; online 2023-04-05]

Elucidating spatiotemporal changes in gene expression has been an essential goal in studies of health, development, and disease. In the emerging field of spatially resolved transcriptomics, gene expression profiles are acquired with the tissue architecture maintained, sometimes at cellular resolution. This has allowed for the development of spatial cell atlases, studies of cell-cell interactions, and in situ cell typing. In this review, we focus on padlock probe-based in situ sequencing, which is a targeted spatially resolved transcriptomic method. We summarize recent methodological and computational tool developments and discuss key applications. We also discuss compatibility with other methods and integration with multiomic platforms for future applications. Expected final online publication date for the Annual Review of Genomics and Human Genetics, Volume 24 is August 2023. Please see for revised estimates.

In Situ Sequencing (ISS) [Collaborative]

PubMed 37018847

DOI 10.1146/annurev-genom-102722-092013

Crossref 10.1146/annurev-genom-102722-092013

Publications 9.5.0