The visual appearance of different interactions can be similar, which might cause confusions in the classification of interactions.
A unique feature of this resource is the classification of interactions into mutually exclusive and simultaneously possible ones.
The classification of the interaction type in training data set for each object (gene), meaning whether Lef1/Tcf transcription factor binds directly or indirectly to the promoter sequence, was derived from the Mouse IDGenes database.
To begin to address this, our curation efforts have begun to include the regulation of protein interactions by post-translational modifications, the specific contexts or conditions under which the interaction occurs, and the classification of genetic interactions according to quantitative phenotypes [ 4].
Analytical rate expressisons for the coupled systems led to criteria for the classification of binary interactions.
The site types were also selected to match the IBIS classification of interaction sites (6), as CDD curators use IBIS in the curation work flow.
Ongoing documentation of DDI occurrence will have to be combined with clinical data to refine the classification of severity of interactions and to limit the number of warnings accordingly.
In this review, we introduce the classification of inter-residue interactions into short, medium and long range based on a simple geometric approach.
According to the STRING classification of interactions, five of the interactions with CDC20, PLK1, AURKB, CDK1 and BRCA2 involve some type of PTM.
Clearly, the above five cases are a complete classification of interaction matrix A in terms of the relationship between (a_{31}) and (a_{21}), (a_{23}) and (a_{13}), (a_{32}) and (a_{12}).
