Article

STcompare: comparative spatial transcriptomics data analysis of structurally matched tissues to characterize differentially spatially patterned genes

2025-11-25

Abstract excerpt

<h4>Motivation</h4> Comparative analysis of spatial transcriptomics (ST) data is needed to identify genes that spatially change in their expression patterns between conditions, such as in diseased versus healthy tissues. Existing methods generally fail to distinguish changes in spatial patterning by focusing only on changes in gene expression magnitude for methods adapted from non-spatial data or on changes in si...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 13c55067-ddb6-513a-8d84-95459c067fc3
DOI: 10.1101/2025.11.21.689847

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

STcompare: comparative spatial transcriptomics data analysis of structurally matched tissues to characterize differentially spatially patterned genesDOI 10.1101/2025.11.21.689847Read

A comparative study of statistical methods for identifying differentially expressed genes in spatial transcriptomicsSemantic proximity Read

Unlocking Multi-Sample Differential Expression for Spatial Transcriptomics Data with TESSERASemantic proximity Read

<i>DESpace2</i> : detection of differential spatial patterns in spatial omics dataSemantic proximity Read

SpatialView: An interactive web application for visualization of multiple samples in spatial transcriptomics experimentsSemantic proximity Read

Dissecting the coordinated progression of cell states in spatial transcriptomics with CoProSemantic proximity Read

Spatial pattern and differential expression analysis with spatial transcriptomic dataSemantic proximity Read

SpatialDEG: Identification of differentially expressed genes by leveraging spatial information in spatially resolved transcriptomic studiesSemantic proximity Read

Statistical tests for bivariate spatial association across multi-omics data with disjoint coordinatesSemantic proximity Read

SpatialQuery: scalable discovery and molecular characterization of multicellular motifs from spatial omics dataSemantic proximity Read

Towards a Better Understanding of Batch Effects in Spatial Transcriptomics: Definition and Method EvaluationSemantic proximity Read

Spatial Transcriptomics Arena (STAr): an Integrated Platform for Spatial Transcriptomics Methodology ResearchSemantic proximity Read

Spatially resolved transcriptome profiles of mammalian kidneys illustrate the molecular complexity of functional nephron segments, cell-to-cell interactions and genetic variantsSemantic proximity Read