InnateDB has been developed to facilitate
systems level investigations of the mammalian (human, mouse and bovine) innate
immune response. Its goal
is to provide a manually-curated knowledgebase of the genes,
proteins, and particularly, the interactions and signaling responses involved
in mammalian innate immunity. InnateDB incorporates information of
the whole human, mouse and bovine interactomes by
integrating interaction and pathway information
from several of the major publicly available databases but
aims to capture an improved coverage of the
innate immunity interactome through manual
curation. Our curation team systematically reviews and
curates experimentally-validated human and mouse
interactions from the biomedical
literature. Bovine interactions are largely predicted via orthology with these interaction participants.
Human and mouse interactions are curated with
rich contextual annotations including
information on the participant molecules, the
reference publication, the
interaction detection method, the cell and
tissue types in which the interaction was
described and a variety of other information in
compliance with the recently proposed minimum
information for molecular interactions (MIMIx)
standard (Nat. Biotech., 2007). We have
developed the
InnateDB submission system to allow curators to submit data using a structured controlled vocabulary for the annotation of protein-protein interaction experiments (Developed by the HUPO Proteomics Standards Initiative).
For further details on InnateDB curation please refer to our paper describing InnateDB curation of the innate immunity interactome which has been published in BMC Systems Biology.
InnateDB is a member of the International Molecular Exchange Consortium (IMEx). This organization is
dedicated to developing rules for capturing protein-protein interaction data, actively curating these interactions from the scientific literature and making them available through a common website.