ArticleGenome biology2025
Identifying cell-type-specific spatially variable genes with ctSVG.
Article in Genome biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
3 citing papers in PubMed.
- Halo: a pretrained model for whole-cell segmentation from nuclei images in spatial transcriptomics.Briefings in bioinformatics · 2026Article
- Benchmarking cell-type-specific spatially variable gene detection methods.Briefings in bioinformatics · 2026Article
- Identifying cell-type-specific spatially variable genes with ctSVG.Genome biology · 2025Article
Corrections and comments
- Update of
Authors and funding
4 authors.
Funding
Abstract
Spatially variable genes (SVGs) reveal the molecular and functional heterogeneity of cells across different spatial regions of a tissue. Sample-wide SVGs identified by existing methods largely overlap with cell-type marker genes derived from single-cell gene expression, leaving the spatial location information largely underutilized. We develop ctSVG, a computational method specifically tailored for Visium HD spatial transcriptomics at single-cell resolution. We show that cell-type-specific SVGs identified by ctSVG include many new genes that do not overlap with sample-wide SVGs or cell-type marker genes and that these genes reveal important biological functions in real spatial datasets.
Indexed as
Identifiers
What OpenQuestion holds
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.