The GISAID Initiative benefits from substantial in-kind contributions from technical partners and commercial service providers with the common goal of strengthening the Initiative's important role in global health
The Bioinformatics Institute (a member of Singapore's A*STAR's Research Entities) provides the CoVsurver and FluSurver power the analysis of data in GISAID to highlight mutations relative to reference strains, display them in the 3D protein structure, cross-link with prior literature phenotype information (antiviral susceptibility, host specificity, glycosylation and antigenic properties), view their geographic and temporal frequency of occurrence as well as co-occurrence with other mutations.
Institut Pasteur's Department of Computational Biology and its Bioinformatics and Biostatistics HUB powers GISAID's automated curation pipeline for hCoV-19 data and provides advanced tools for its analysis including COVID-Align, for accurate online alignment of genomes using a profile HMM, or NGPhylogeny to aid in the reconstruction and analysis of phylogenetic relationships between molecular sequences. To infer ancestral characters on a rooted phylogenetic tree with annotated tips, PastML uses maximum likelihood or parsimony with the results visualized as a zoomable html map.
QIAGEN AG, an infrastructure partner to the GISAID Initiative, provides a customized version of its annotation pipeline, adapted for full integration into the next generation pathogen agnostic database application, which is currently under development. This QIAGEN technology facilitates the quality control of all genetic sequence data in GISAID, ensuring highest quality standards.
The GISAID homepage was designed in collaboration with the creative team of Silke Arend at a7digital GmbH using the flexibility of open source CMS technology TYPO3 as a basis to permit the access of a wide range of content contributors commensurate with the needs of GISAID's global participation.
Prof. Dr. Trevor Bedford at the Fred Hutchinson Cancer Research Center in Seattle and Prof. Dr. Richard Neher at the Biozentrum University of Basel provide the next generation of TreeTool applications. This tool permits the analysis of data in GISAID, enabling users to a create phylogenetic tree for the visualization of annotated influenza phylogenies based on blab/nextflu.