The rapid expansion of high-throughput sequencing, single-cell and spatial transcriptomics, and population-scale genome initiatives is transforming research in immunology, infectious disease, microbiome science, and complex trait genetics. However, integrating heterogeneous, high-dimensional datasets into mechanistic and predictive models of host–microbe interactions remains a major computational challenge. This session will highlight computational intelligence methods that connect host genomics, immune regulation, and microbial dynamics across biological scales — from single-cell regulatory programs to graph-based population pangenomes.

Advances in epigenomic profiling have clarified how enhancer landscapes, transcription factor networks, and chromatin architecture shape tissue-specific immune identities and inflammatory responses. In parallel, telomere-to-telomere assemblies and national genome programs are enabling graph-based references and refined analyses of germline variation across diverse populations. Complementing these efforts, studies of host–microbiome and host–pathogen systems increasingly employ network-based modeling of protein–protein interactions, spatial transcriptomics of infected tissues, and integrative multi-omics approaches to dissect mechanisms underlying autoimmune, inflammatory, metabolic, and infectious diseases.

The session will emphasize methodological innovations in multi-omics integration, batch effect correction, deep generative modeling for single-cell data, scalable pangenome analytics, network inference, and causal modeling. Particular attention will be given to approaches addressing sparsity, heterogeneity, interpretability, and computational scalability, including hardware-accelerated genomics workflows.

By bridging immune epigenomics, microbiome ecology, pathogen biology, and population genomics through advanced computational frameworks, this session aligns with CIBB’s mission to advance computational intelligence methods for bioinformatics and biostatistics, fostering dialogue between method developers and translational researchers.