HEARTSVG: a fast and accurate method for identifying spatially variable genes in large-scale spatial transcriptomics

X Yuan, Y Ma, R Gao, S Cui, Y Wang, B Fa… - Nature …, 2024 - nature.com
Identifying spatially variable genes (SVGs) is crucial for understanding the spatiotemporal
characteristics of diseases and tissue structures, posing a distinctive challenge in spatial …

A comprehensive review of approaches for spatial domain recognition of spatial transcriptomes

Z Wang, A Geng, H Duan, F Cui, Q Zou… - Briefings in Functional …, 2024 - academic.oup.com
In current bioinformatics research, spatial transcriptomics (ST) as a rapidly evolving
technology is gradually receiving widespread attention from researchers. Spatial domains …

[PDF][PDF] ST-SCSR: identifying spatial domains in spatial transcriptomics data via structure correlation and self-representation

M Zhang, W Zhang, X Ma - Briefings in Bioinformatics, 2024 - academic.oup.com
Recent advances in spatial transcriptomics (ST) enable measurements of transcriptome
within intact biological tissues by preserving spatial information, offering biologists …

Cell-specific priors rescue differential gene expression in spatial spot-based technologies

O Nahman, TJ Few-Cooper… - Briefings in …, 2025 - academic.oup.com
Spatial transcriptomics (ST), a breakthrough technology, captures the complex structure and
state of tissues through the spatial profiling of gene expression. A variety of ST technologies …

Categorization of 31 computational methods to detect spatially variable genes from spatially resolved transcriptomics data

G Yan, SH Hua, JJ Li - arXiv preprint arXiv:2405.18779, 2024 - arxiv.org
In the analysis of spatially resolved transcriptomics data, detecting spatially variable genes
(SVGs) is crucial. Numerous computational methods exist, but varying SVG definitions and …

Benchmarking algorithms for spatially variable gene identification in spatial transcriptomics

X Chen, Q Ran, J Tang, Z Chen, S Huang, X Shi, R Xi - bioRxiv, 2024 - biorxiv.org
The rapid development of spatial transcriptomics has underscored the importance of
identifying spatially variable genes. As a fundamental task in spatial transcriptomic data …

[PDF][PDF] Deep Learning-Enabled Integration of Histology and Transcriptomics for Analyzing Single-Cell Spatial Profiles

Y Ge, J Leng, Z Tang, K Wang, KU, SM Zhang, S Han… - Research - spj.science.org
Spatially resolved transcriptomics have enabled comprehensive measurement of gene
expression patterns at subcellular resolution while preserving spatial context information …

Supervised Analysis of Alternative Polyadenylation from Single-Cell and Spatial Transcriptomics Data with spvAPA

Q Zhang, L Kang, H Yang, F Liu, X Wu - Available at SSRN 4881943 - papers.ssrn.com
Alternative polyadenylation (APA) is an essential post-transcriptional modification for
regulating gene expression and contributes greatly to the complexity of transcriptome and …

[引用][C] DAIS: a method for identifying spatial domains based on density clustering of spatial omics data.

Q Yu, R Tian, X Jin, L Wu - Journal of Genetics and Genomics= Yi …, 2024 - europepmc.org
DAIS: a method for identifying spatial domains based on density clustering of spatial omics
data. - Abstract - Europe PMC Sign in | Create an account https://orcid.org Europe PMC Menu …