Narrative Drug Overviews: Drug-Target-Disease Networks

[HermannKroll]

PubPharm has a service called "Drug-Target-Disease-Networks" https://pubpharm.tu-braunschweig.de/netview/ai-access_2021_ee_6.html#

This service allows users to navigate through network views: A user has to enter a drug and then a network based on context-similar entities is generated. The problem is that we cannot update the service. We plan to discontinue the service.

Our current idea is to integrate a network view directly into the Drug Overview. Maybe use the same visualization method like for the document graph visualization.

The network view should contain the following information:

• The searched drug as the central entity
• Top10 diseases
• Top10 targets

Top counted by frequency.

We could directly service the diseases and targets from our overview categories (Indications and Target interactions). The problem is that we do not have the information available which disease is associated with which target (at least yet). This would require more queries for the narrative service. I would rather think about pre-processing the network data (similar to keyword clouds).

My suggestion is: Start with the drug + diseases + targets (and skip the interactions between targets and diseases for now). Let us show the demo to our experts and see how we must improve the visualization.

[HermannKroll]

If a user clicks on an edge, forward to a search in the narrative service for that relation.

[HermannKroll]

Need to be verified by experts.

[ir0ntr0nik]

Example for Aspirin

Pointer currently hovering over "f10"

[HermannKroll]

1. Add Drug Associations ass a new category in Drug Overviews: (query: Metformin associated ?X(Drug)

Some recommendations for the Network View:

• Integrate Drug Associations (Metformin associated ?X)...See Drug Associations
• Make Disease, Target and Drug selectable (enable them and disable them for visualization in that network). Like in the document graphs. Maybe left upper corner
• Change the colour layout for the network view: use the same colours as for document graphs -> Gene/Target are türkis, Drugs are red, diseases are green -> Maybe make these colour encoding static
• is a full-screen mode possible? Like in the original networks (https://pubpharm.tu-braunschweig.de/netview/ai-access_2021_ee_6.html).
• A slider to select how many entities for each category should be visualized (topk for each category). Slider should be between 5-20. Maybe right lower corner

Maybe we should talk next meeting about the static colour scheme.

[HermannKroll]

Several improvements. Waiting for new feedback before going live.

[HermannKroll]

New Feedback:

• Put the clinical phase directly behind the disease name (Not as an extra node)
• Is it possible to have 3 layers? (Now we have drugs and target mixed as one circle and diseases as a second). Is it possible to have three cycles? (drugs, targets, disease)
• Why is tnf rendered over metformin? Can we fix that?
• Centered button (see other issue)
• Species and target interaction are both purple. Species maybe dark green?

[HermannKroll]

Are we sure that we use the same color schema for entity types across the whole service? Genes/targets have in document graph a different color than in drug overviews. Same for dosage forms.

[HermannKroll]

First version implemented. Going into beta phase now