konnect2prot

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Spreading is a key activity in a network, and hence, an unmet need exists for identifying the influential spreaders (IS) in a protein-protein interaction network (PPIN). However, for best outcomes, these spreaders should be derived from a causal inference of interacting proteins, which, again, must be enriched in specific contexts by augmenting information such as pathways, localization, process, and tissue specificity. ‘Konnect2prot’ (Published in Oxford Bioinformatics, 2023) is a first-of-its-kind user-friendly directional PPI web application that stores multidimensional information of an interactome and provides user-driven context-specificity, as well as IS identification. 


konnect2prot fetches information from secondary PPI databases and thereafter filters for causality. It allows the search of single or multiple proteins to build a directional PPI network. Using localization, biological process, tissue-specificity, molecular function, and pathway filters, users can build a context-specific PPIN. Context-specificity plays a vital role in understanding the underlying mechanism of a disease. For example, when investigating proteins, the initial step is determining their location within the cells, which is a reference for designing drugs. Users can then find the IS acting as maximizers of a spreading process. They can also be controllers to halt the information flow throughout the network. For example, if the goal is to stop a virus propagation, one would hunt for controllers, whereas if the goal is to maximize the impact of a specific treatment, one would need maximizers. Afterwards, a clustergram of IS-related pathways is also provided to find which pathways are modified by the network's top spreaders. This will enable the identification of intra-pathway deregulation, interdependence of pathways, and pleiotropic effects of genes. The information on structures and ligands of these IS can further be extracted to use for drug-repurposing purposes. 


Access konnect2prot through the following link: 

https://konnect2prot.thsti.in/


Publication link:

https://academic.oup.com/bioinformatics/article/39/1/btac815/6955601

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