SARS-CoV-2 release: real-time, reproducible and fair share systems biology research against Covid-19.
To better respond to the Covid-19 crisis, manual biocuration of Coronaviridae / host protein-protein interactions was initiated (Visualisation here). This led to the annotation of 167 brand new protein-protein interactions in compliant PSI-MITAB 2.5. In addition, we are also happy to integrate the Krogan Lab dataset recently published as a biorxiv preprint (Download PSI-MITAB2.5 here).
What's new in VirHostnet 2.0 (release March 2020) ?
This release include 38.642 virus-host and virus-virus manually biocurated protein-protein interactions, including more than 4.000 new interactions since the last January 2019 release.
A VirHostNet SOLR PSICQUIC webservice that provides openaccess annotations in PSI MI-TAB 2.5 format (download)
The use of PSICQUIC webservice (March 10th 2020) to download INTACT, MINT, BIOGRID, DIP, Uniprot, MatrixDB, HPIDb, IMEx protein-protein interaction data in PSI-MITAB 2.5 format
Virus' host range annotations provided by Viralzone, Virus-Host DB, and in-house text-mining of genbank are now integrated and used to highlight biologically relevant virus/host ppi
The use of UniProtkb chain feature key - including mature peptides - to annotate protein-protein interactions at a finer scale
The use of MIscore scoring function to measure the quality of each non-redundant interaction based on independant experiments information
Network-based nodes and edges properties (degree, betweeness, ...)
A BLAST webservice to infer novel virus/host ppi from sequences based on the assumption of interology.
The Interology web service facilitates the prediction and visualisation of virus-virus and virus-host protein-protein interactions from raw primary protein sequences (in .fasta format).
A short tutorial on how to use interology inference based on protein sequence homology is availabe here (EBOV predicted interaction network).
Past protein sequences in .fasta format:
OR Load a file of protein sequences from your local disk in .fasta format: