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BRIDGE: an interactive application for multi-omics data analysis, visualization and integration.

David Márquez-Oller·Andrea Pauli·Jörg Fallmann
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Abstract

SUMMARY: BRIDGE is a Shiny-based application that provides an accessible, modular platform for individual and integrative multi-omics analysis. Using an independent SQLite database backend, it offers a local, private, and user-friendly environment that requires no prior computational expertise. The application supports proteomics, phospho-proteomics, and RNA-seq analyses through a comprehensive suite of visualization and analytical modules, together with an integrated multi-omics analysis pipeline. Built-in caching and asynchronous processing improve responsiveness, enabling efficient exploration, analysis, and visualization of multi-omics datasets on moderate hardware. AVAILABILITY AND IMPLEMENTATION: BRIDGE is implemented in R using Shiny and is freely available as a Docker container at https://ghcr.io/paulilab/bridge. A public demonstration server with example datasets is available at https://bridge.imp.ac.at. Code and datasets are also available at https://github.com/paulilab/BRIDGE and under DOI: https://doi.org/10.5281/zenodo.20215824.

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MultiomicsSoftwareProteomicsComputational BiologyUser-Computer InterfaceJournal ArticleResearch Support, Non-U.S. Gov't

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David Márquez-Oller, Andrea Pauli, Jörg Fallmann. 2026-07-02. BRIDGE: an interactive application for multi-omics data analysis, visualization and integration.. https://doi.org/10.1093/bioinformatics%2Fbtag558

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