The WebGestalt (WEB-based GEnE SeT AnaLysis Toolkit) has been updated to include significant enhancements in data coverage, functionality, and user experience. The tool now supports 8 organisms and 201 gene identifiers from various databases and platforms, making it accessible to a wide range of researchers. The number of functional categories has increased to 78,612, covering Gene Ontology, pathways, network modules, gene-phenotype associations, gene-disease associations, gene-drug associations, and chromosomal locations. New interactive features, such as pathway maps, hierarchical network visualization, and phenotype ontology visualization, have been added to help users better understand the enrichment results. Additionally, WebGestalt now supports identifiers from major high-throughput platforms and SNP arrays, enhancing its utility for genetic studies. The tool also includes new methods for multiple-test correction and a 'Top10' feature for quick overview of enriched categories. These updates make WebGestalt a robust and user-friendly resource for functional enrichment analysis in omics studies.The WebGestalt (WEB-based GEnE SeT AnaLysis Toolkit) has been updated to include significant enhancements in data coverage, functionality, and user experience. The tool now supports 8 organisms and 201 gene identifiers from various databases and platforms, making it accessible to a wide range of researchers. The number of functional categories has increased to 78,612, covering Gene Ontology, pathways, network modules, gene-phenotype associations, gene-disease associations, gene-drug associations, and chromosomal locations. New interactive features, such as pathway maps, hierarchical network visualization, and phenotype ontology visualization, have been added to help users better understand the enrichment results. Additionally, WebGestalt now supports identifiers from major high-throughput platforms and SNP arrays, enhancing its utility for genetic studies. The tool also includes new methods for multiple-test correction and a 'Top10' feature for quick overview of enriched categories. These updates make WebGestalt a robust and user-friendly resource for functional enrichment analysis in omics studies.