Neo4j Desktop Setup & Visualization

Guide to visualize knowledge graph in Neo4j Desktop

Installation

1. Download Neo4j Desktop

   • Download Neo4j Desktop from https://neo4j.com/download/

2. Create new project

   • Create new project - name it anything

3. Add Existing Database

   • Load from .dump file

Visualizing the Graph

Click Query then connect to database instance, then write

:use neo4j-2025-10-20T05-46-11-c7ad3094

See Everything (Warning: slow if >1000 nodes)

MATCH (n)-[r]-(d)
RETURN n,r,d
LIMIT 100

By Node Type

// All diseases
MATCH (n:Disease)
RETURN n
LIMIT 50

// All proteins
MATCH (n:Protein)
RETURN n
LIMIT 50

With Relationships

// Show diseases and what they're connected to
MATCH (d:Disease)-[r]-(other)
RETURN d, r, other
LIMIT 100

Count Nodes by Label

MATCH (n)
WHERE NOT n:Document
RETURN labels(n)[0] AS type, count(n) AS count
ORDER BY count DESC

Search for Specific Entity

// Find Parkinson's related nodes
MATCH (n)
WHERE n.id =~ '(?i).*parkinson.*'
   OR n.name =~ '(?i).*parkinson.*'
RETURN n

Most Connected Nodes

MATCH (n)-[r]-()
WHERE NOT n:Document
RETURN n, count(r) AS connections
ORDER BY connections DESC
LIMIT 20