ArticleNature communications2023
Spatial-linked alignment tool (SLAT) for aligning heterogenous slices.
Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers.
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Who cites it
57 citing papers in PubMed.
- 3D multi-omics tumour atlases: from technology to biology and clinical translation.Nature reviews. Cancer · 2026Review
- Pop-Corn: Predicting Perturbation Phenotype Effects Across Single-Cell and Spatial Contexts.bioRxiv : the preprint server for biology · 2026Article
- OT-knn: A neighborhood-aware optimal transport framework for aligning spatial transcriptomics data.PLoS computational biology · 2026Article
- Compartmentalized B cell-microglia crosstalk drives ischemic white matter demyelination.Nature communications · 2026Article
- Article
- Integrative spatial multi-omics reveals the tumor ecosystem: From mechanistic insights to therapeutic strategies.iScience · 2026Review
- Fault-tolerant 3D reconstruction from 2D spatial proteomics sections.bioRxiv : the preprint server for biology · 2026Article
- GenOT: generative optimal transport enables spatiotemporal interpolation and generation in cross-platform spatial transcriptomics.Genome biology · 2026Article
- Spatiotemporal cell type deconvolution leveraging tissue structure.Research square · 2026Article
- SPOmiAlign: a modality-agnostic computational framework for multimodal spatial omics alignment enabled by a feature matching foundation model.Briefings in bioinformatics · 2026Article
- Interpretable, flexible and spatially aware integration of multiple spatial transcriptomics datasets from diverse sources.Nature genetics · 2026Article
- Mosaic integration of spatial multi-omics with SpaMosaic.Nature genetics · 2026Article
- Integrating optogenetic fMRI and spatial transcriptomics to reveal circuit-specific gene signatures in fronto- and hippo-thalamic networks.Nature communications · 2026Article
- Alignment of spatial transcriptomics slices across diseases, platforms and conditions.Genome medicine · 2026Article
- 3d-OT: a deep geometry-aware framework for heterogeneous slices alignment of spatial multi-omics.Nature methods · 2026Article
- Network model for alignment, stitching and slice-to-volume 3D reconstruction of large-scale spatially resolved slices.Nature communications · 2026Article
- GALA: a unified landmark-free framework for coarse-to-fine spatial alignment across resolutions and modalities in spatial transcriptomics.Briefings in bioinformatics · 2026Article
- JADE: Joint Alignment and Deep Embedding for Multi-Slice Spatial Transcriptomics.bioRxiv : the preprint server for biology · 2026Article
- Robust characterization and interpretation of rare pathogenic cell populations from spatial omics using GARDEN.Nature communications · 2026Article
- Vector-guided graph learning for spatial multi-slice multi-omics alignment.Cell reports methods · 2025Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Spatially resolved omics technologies reveal the spatial organization of cells in various biological systems. Here we propose SLAT (Spatially-Linked Alignment Tool), a graph-based algorithm for efficient and effective alignment of spatial slices. Adopting a graph adversarial matching strategy, SLAT is the first algorithm capable of aligning heterogenous spatial data across distinct technologies and modalities. Systematic benchmarks demonstrate SLAT's superior precision, robustness, and speed over existing state-of-the-arts. Applications to multiple real-world datasets further show SLAT's utility in enhancing cell-typing resolution, integrating multiple modalities for regulatory inference, and mapping fine-scale spatial-temporal changes during development. The full SLAT package is available at https://github.com/gao-lab/SLAT .
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.