DoReMiTra: An R/Bioconductor data package for orchestrating the analysis of radiation transcriptomic studies

Abstract Summary Understanding the molecular impact of ionizing radiation exposure is essential for both biomedical research and public health. Among the possible approaches to study this phenomenon, gene expression profiling via transcriptomics assays has been a valuable approach over the last decades to unravel the mechanisms of cellular responses to radiation. To our knowledge, there is no data package gathering well-curated radiation transcriptomic datasets covering microarrays and, more recently, RNA sequencing. Therefore, we present DoReMiTra, an R/Bioconductor data package that represents the first unified radiation transcriptomics dataset collection integrated with Bioconductor’s ExperimentHub for efficient distribution. DoReMiTra standardizes and harmonizes sample-level metadata and provides pre-processed SummarizedExperiment objects to facilitate comparative analyses. Additionally, we introduce a lightweight Shiny app interface for interactive visualization and preliminary exploration. DoReMiTra serves as a valuable resource and tool in radiation research for benchmarking, integrative analyses, and biomarker discovery. Availability and implementation DoReMiTra is available under the MIT license at https://bioconductor.org/packages/DoReMiTra. Supplementary information Supplementary data are available at Bioinformatics Advances online.