Deep learning in spatial transcriptomics: Learning from the next next-generation sequencing

AA Heydari, SS Sindi - Biophysics Reviews, 2023 - pubs.aip.org
Spatial transcriptomics (ST) technologies are rapidly becoming the extension of single-cell
RNA sequencing (scRNAseq), holding the potential of profiling gene expression at a single …

Deep learning in spatial transcriptomics: Learning from the next next-generation sequencing

AA Heydari, SS Sindi - BioRxiv, 2022 - biorxiv.org
Spatial transcriptomics (ST) technologies are rapidly becoming the extension of single-cell
RNA sequencing (scRNAseq), holding the potential of profiling gene expression at a single …

[HTML][HTML] Recent advances in spatially resolved transcriptomics: challenges and opportunities

J Lee, M Yoo, J Choi - BMB reports, 2022 - ncbi.nlm.nih.gov
Single-cell RNA sequencing (scRNA-seq) has greatly advanced our understanding of
cellular heterogeneity by profiling individual cell transcriptomes. However, cell dissociation …

Systematic comparison of sequencing-based spatial transcriptomic methods

Y You, Y Fu, L Li, Z Zhang, S Jia, S Lu, W Ren, Y Liu… - Nature …, 2024 - nature.com
Recent developments of sequencing-based spatial transcriptomics (sST) have catalyzed
important advancements by facilitating transcriptome-scale spatial gene expression …

An introduction to spatial transcriptomics for biomedical research

CG Williams, HJ Lee, T Asatsuma, R Vento-Tormo… - Genome Medicine, 2022 - Springer
Single-cell transcriptomics (scRNA-seq) has become essential for biomedical research over
the past decade, particularly in developmental biology, cancer, immunology, and …

STellaris: a web server for accurate spatial mapping of single cells based on spatial transcriptomics data

X Li, C Xiao, J Qi, W Xue, X Xu, Z Mu… - Nucleic acids …, 2023 - academic.oup.com
Single-cell RNA sequencing (scRNA-seq) provides insights into gene expression
heterogeneities in diverse cell types underlying homeostasis, development and pathological …

Integrating spatial and single-cell transcriptomics data using deep generative models with SpatialScope

X Wan, J Xiao, SST Tam, M Cai, R Sugimura… - Nature …, 2023 - nature.com
The rapid emergence of spatial transcriptomics (ST) technologies is revolutionizing our
understanding of tissue spatial architecture and biology. Although current ST methods …

Advances in spatial transcriptomics and related data analysis strategies

J Du, YC Yang, ZJ An, MH Zhang, XH Fu… - Journal of Translational …, 2023 - Springer
Spatial transcriptomics technologies developed in recent years can provide various
information including tissue heterogeneity, which is fundamental in biological and medical …

Spatial transcriptomics data and analytical methods: an updated perspective

S Khan, JJ Kim - Drug Discovery Today, 2024 - Elsevier
Spatial transcriptomics (ST) is a newly emerging field that integrates high-resolution imaging
and transcriptomic data to enable the high-throughput analysis of the spatial localization of …

Spatial transcriptomics in human biomedical research and clinical application

W Hu, Y Zhang, J Mei, X Fang - Current Medicine, 2023 - Springer
Over the past 15 years, single-cell RNA sequencing (scRNA-seq) technology, in
combination with other omics, has revealed the mechanisms of human development …