Scoping Review: Methods and Applications of Spatial Transcriptomics in Tumor Research.

ABSTRACT: Spatial transcriptomics (ST) examines gene expression within its spatial context on tissue, linking morphology and function. Advances in ST resolution and throughput have led to an increase in scientific interest, notably in cancer research. This scoping study reviews the challenges and practical applications of ST, summarizing current methods, trends, and data analysis techniques for ST in neoplasm research. We analyzed 41 articles published by the end of 2023 alongside public data repositories. The findings indicate cancer biology is an important focus of ST research, with a rising number of studies each year. Visium (10x Genomics, Pleasanton, CA, USA) is the leading ST platform, and SCTransform from Seurat R library is the preferred method for data normalization and integration. Many st

SUBMITTER: Maciejewski K 

PROVIDER: S-EPMC11394603 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature