neo4j
ArangoDB
RedisGraph
NetworkX
Titan Database
LemonGraph
OrientDB
Wikibase is the software that runs Wikidata, but is also usable for other projects beyond that.

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Meet Neo4j: The graph database platform powering today's mission-critical enterprise applications, including artificial intelligence, fraud detection and recommendations.
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A distributed open-source database with a flexible data model for documents, graphs, and key-values.
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A high-performance graph database implemented as a Redis module.
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NetworkX is a Python language software package for the creation, manipulation, and study of the...
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Titan : Distributed Graph Database
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An embedded transactional graph engine for Python.
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