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Review
. 2024 Feb 2:23:883-891.
doi: 10.1016/j.csbj.2024.01.016. eCollection 2024 Dec.

Recent advances in spatially variable gene detection in spatial transcriptomics

Sikta Das Adhikari  1   2 , Jiaxin Yang  1 , Jianrong Wang  1 , Yuehua Cui  2
Affiliations
Review

Recent advances in spatially variable gene detection in spatial transcriptomics

Sikta Das Adhikari et al. Comput Struct Biotechnol J. .

Abstract

With the emergence of advanced spatial transcriptomic technologies, there has been a surge in research papers dedicated to analyzing spatial transcriptomics data, resulting in significant contributions to our understanding of biology. The initial stage of downstream analysis of spatial transcriptomic data has centered on identifying spatially variable genes (SVGs) or genes expressed with specific spatial patterns across the tissue. SVG detection is an important task since many downstream analyses depend on these selected SVGs. Over the past few years, a plethora of new methods have been proposed for the detection of SVGs, accompanied by numerous innovative concepts and discussions. This article provides a selective review of methods and their practical implementations, offering valuable insights into the current literature in this field.

Keywords: Single cell RNA sequencing; Spatial transcriptomics; Spatially resolved transcriptomics; Spatially variable genes.

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Conflict of interest statement

The authors declare that we have no financial or personal relationships with other people or organizations that could inappropriately influence or bias my work. We do not have any conflicts of interest, and we have not received any financial support for this work that could create potential conflicts of interest.

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