Shows all nodes directly connected with the central node, and all the links between the
Double click on a node switches the central node.
Shows all nodes directly connected with the central node, but not the links between
Double click on a node opens the first neighbours of that node as well.
LIMIT NETWORK SIZE:
Slider controls the number of genes displayed on the network,
based on their richness in canSAR annotation features.
Highly annotated genes are ranked higher.
The default canSAR annotation feature selection (drug targets and ligandability
likelihood assessed by the canSAR structural and chemistry ligandability pipelines)
can be customised under the prioritization tab.
Each selected feature contributes one point to the gene annotation score
(except drug target which contributes 10 points).
Slider controls the minimum confidence level for an interaction to be displayed on the network.
Interaction confidence ranges from 0 (no evidence) to 1 (highly confident).
By default only the following highly confident interactions are shown:
Pathway signalling events
Crystallographically resolved interactions
The confidence slider is activated when alternative interaction types are selected. These are
evaluated according to the number of published evidence for the interaction. Each publication
contributes 0.2 to the confidence score, making interactions with five or more publications
highly confident (score of 1).
Predictive interactions (e.g. MSigDB TFT geneset-derived interactions) are given a default low
score of 0.1.
The user can select from the different types of interactions in the canSAR interactome.
Interactions can be classified by binding and information transfer mode. Interaction types are
prioritised for display purposes.
Reaction: Directional interaction where information is
passed from enzyme to substrate via direct binding, resulting in a post-translational
Pathway: Directional interaction that can be activating
or inhibiting. Usually information transfer occurs via direct binding though not always
Direct: Direct binding between two proteins with no
particular directionality in information transfer. Crystallographically resolved binding
interfaces are highlighted as a separate group (PDB).
Transcription: Directional interactions between a
transcriptional modulator and its target gene. Transcriptional up-regulation and
down-regulation is provided when known. By default indirect binding as the interaction occurs
at the DNA level.
Complex: Undirected interaction between two proteins in
the sample complex, but not necessarily bound directly to each other. Low confidence complex
interactions are treated as a separate group: these are mostly co-localisation based
interactions, where the same complex assumption cannot be made.
To reduce network complexity, only a single interaction type is drawn between two genes on the
network. Display prioritisation is based on information transfer and binding mode: