ArticleBriefings in bioinformatics2025
TRIAGE: an R package for regulatory gene analysis.
Article in Briefings in bioinformatics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
What it found
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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.
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Who cites it
5 citing papers in PubMed.
- TRIAGE Toolkit: Streamlined Discovery of Regulatory Genes and Elements.Current protocols · 2026Article
- Computational modelling of cell identity.The Biochemical journal · 2026Review
- The changing landscape of gene expression analysis.Briefings in bioinformatics · 2026Review
- TRIP13 identified by WGCNA as a progression-related and prognostic biomarker in ovarian cancer.Frontiers in medicine · 2026Article
- A pluripotent stem cell atlas of multilineage differentiation.Scientific data · 2025Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Regulatory genes are critical determinants of cellular responses in development and disease, but standard RNA sequencing (RNA-seq) analysis workflows, such as differential expression analysis, have significant limitations in revealing the regulatory basis of cell identity and function. To address this challenge, we present the TRIAGE R package, a toolkit specifically designed to analyze regulatory elements in both bulk and single-cell RNA-seq datasets. The package is built upon TRIAGE methods, which leverage consortium-level H3K27me3 data to enrich for cell-type-specific regulatory regions. It facilitates the construction of efficient and adaptable pipelines for transcriptomic data analysis and visualization, with a focus on revealing regulatory gene networks. We demonstrate the utility of the TRIAGE R package using three independent transcriptomic datasets, showcasing its integration into standard analysis workflows for examining regulatory mechanisms across diverse biological contexts. The TRIAGE R package is available on GitHub at https://github.com/palpant-comp/TRIAGE_R_Package.
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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.