Back to search

Article

ProbeST: a custom probe design pipeline for Spatial Transcriptomics

2025-09-04

Abstract excerpt

Probe-based Spatial Transcriptomics profiles spatially-resolved transcriptomes using gene-specific probe pairs for both Formalin-fixed paraffin-embedded (FFPE) and Fresh Frozen samples. However, its applicability is restricted to human and mouse studies, due to commercial probe set availability. Here, we present ProbeST, an open-source computational pipeline for designing custom probe sets for any organism of inte...

Topics

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

Identifiers and source

Literature Corpus work
6a9ad200-c995-5835-a907-a6cdcdfba21e
DOI
10.1101/2025.08.29.673037
Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest
Interactive article relationship graphSelect a related publication card to move it into the centre and load its closest explainable connections. Solid lines are source-backed structured connections. Dashed lines are semantic discovery signals and are not scientific evidence.
ProbeST: a custom probe design pipeline for Spatial TranscriptomicsDOI 10.1101/2025.08.29.673037
Spatial Meta-transcriptomes of human and murine intestinesSemantic proximity
Simultaneous Profiling of Host Expression and Microbial Abundance by Spatial Meta-Transcriptome SequencingSemantic proximity
Dual spatially resolved transcriptomics for SARS-CoV-2 host-pathogen colocalization studies in humansSemantic proximity
Dual spatially resolved transcriptomics for human host–pathogen colocalization studies in FFPE tissue sectionsSemantic proximity
Spatial host-microbiome sequencingSemantic proximity
Single-cell spatial transcriptomics of fixed, paraffin-embedded biopsies reveals colitis-associated cell networksSemantic proximity
In situ Discovery of Immune Repertoire Reveals Antitumor Immunity and Therapeutic AntibodiesSemantic proximity
Dual spatial host-bacterial gene expression in Mycobacterium abscessus respiratory infectionsSemantic proximity
SOAR elucidates disease mechanisms and empowers drug discovery through spatial transcriptomicsSemantic proximity
A scalable approach for tissue microarray profiling using spatial single cell transcriptomicsSemantic proximity
Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samplesSemantic proximity
Custom Probe-Based Spatial Transcriptomics Enables Microbiome Detection in FFPE Colorectal Cancer TissueSemantic proximity
Select a neighboring publication to make it the new centre.