Multiomics approaches to studying systems biology are very powerful tools that can elucidate changes in the genomic, transcriptomic, proteomic, and metabolomic levels within a particular cell type in response to an infection. These approaches are valuable for understanding the mechanisms behind disease pathogenesis, and specifically how the immune system responds to being challenged. With the emergence of the COVID-019 pandemic, now more than ever, the importance and utility of these tools has become evident in garnering a better understanding of the systems biology within the innate and adaptive immune response and for developing treatments and preventative measures for new and emerging pathogens that pose a threat to human health. In this review we focus on the various state of the art “omics” technologies used within the scope of innate immunity.