The Laboratory for Applied Bioinformatics establishes streamlined and automated workflows for analysis of sequencing data, with respect to the peculiarities of viral genomes. One central aspect is therefore the application and connection of already existing bioinformatics software in order to generate high-quality viral genomes and functional annotations. Especially for complex DNA virus, such as Herpesviruses, a functional annotation of coding regions is only accessible via the viral transcriptome. The laboratory is therefore using specialized sequencing methods that allow targeted sequencing of viral messenger RNA (mRNA) in order to achieve synergistic effects of combining genomic and transcriptomic data.
Furthermore, the laboratory is actively supporting the organization, implementation and analysis of gene expression studies. These studies use sequencing methods in order to quantify the effects of a stimulus, e.g. viral infection or active chemical compound, on the expressed transcriptome of the underlying model in relation to untreated controls. As a result, the effects caused by the stimulus can be traced back to transcriptional activation or shutdown of single genes and functional correlated metabolic pathways. In order to conduct these expression-based analysis using non-model organism, the laboratory is constantly developing workflows for the assembly and annotation of de novo transcriptomes.
Finally, existing bioinformatics workflows and programs are maintained and improved by the Laboratory for Applied Bioinformatics. In order to conduct and organize high-throughput sequencing experiments the laboratory is working in close contact to all working groups within in the Friedrich-Loeffler-Institutes and especially the Laboratory for NGS and Microarray Diagnostics.