VarXOmics: A Versatile Web Server for Genomic Data Querying, Analysis, and Variant Prioritization With Multi-omics Insights
Journal of Molecular Biology, vol.438, no.18, 2026 (SCI-Expanded, Scopus)
- Publication Type: Article / Article
- Volume: 438 Issue: 18
- Publication Date: 2026
- Doi Number: 10.1016/j.jmb.2026.169667
- Journal Name: Journal of Molecular Biology
- Journal Indexes: Science Citation Index Expanded (SCI-EXPANDED), Scopus, Artic & Antarctic Regions, BIOSIS, Chemical Abstracts Core, EMBASE
- Keywords: clinical genetics, genomics analysis, multi-omics, precision medicine, variant prioritization
- Ataturk University Affiliated: Yes
Abstract
Numerous web-based tools have been developed to support large-scale genomics research, whereas challenges remain due to their limited functionality. Therefore, we developed VarXOmics, an end-to-end, versatile web server for querying variants and genes, streamlining germline variant analysis, prioritizing variants with multi-omics insights, and providing interactive visualizations. The utility of VarXOmics was demonstrated by analyzing multiple small variants of the whole genome sequencing data from a breast cancer patient. It prioritized BRCA2 c.3751dup as the most likely pathogenic variant, and highlighted disease associations with cell cycle regulation, DNA repair pathways, and type 2 diabetes through multi-omics evidence, gene set enrichment, and network analysis. Overall, VarXOmics serves as a practical genomics platform for researchers and clinicians. It shows potential in identifying pathogenic variants and causal genes, uncovering the molecular mechanisms of disease pathogenesis, providing valuable references for clinical decision-making and therapeutic strategies, thus advancing precision medicine. VarXOmics is publicly available at https://www.phenomeportal.org/varxomics.