# Examples scripts ## SemMedDB Knowledge Graph ### 1. Get all genomic entities that interacts with one or more genomic entities ``` python examples/scripts/read_from_neo4j.py --host localhost --bolt_port 7687 \ --username \ --password \ --filter subject_category=genomic_entity \ --filter edge_label=interacts_with \ --filter object_category=genomic_entity ``` - Total number of nodes loaded: 20656 - Total number of edges loaded: 171811 ### 2. Get all chemical substances and what diseases they treat ``` python examples/scripts/read_from_neo4j.py --host localhost --bolt_port 7687 \ --username \ --password \ --filter subject_category=chemical_substance \ --filter edge_label=treats \ --filter object_category=disease ``` - Total number of nodes loaded: 49713 - Total number of edges loaded: 516334 ### 3. Get all chemical substances and the biological process that they affect ``` python examples/scripts/read_from_neo4j.py --host localhost --bolt_port 7687 \ --username \ --password \ --filter subject_category=chemical_substance \ --filter edge_label=affects \ --filter object_category=biological_process ``` - Total number of nodes loaded: 43587 - Total number of edges loaded: 658355 ### 4. Get all anatomical entities and the disease that they are associated with ``` python examples/scripts/read_from_neo4j.py --host localhost --bolt_port 7687 \ --username \ --password \ --filter subject_category=anatomical_entity \ --filter edge_label=location_of \ --filter object_category=disease ``` - Total number of nodes loaded: 36179 - Total number of edges loaded: 510709 ### 5. Get all activities and behaviors and the diseases that they predispose to ``` python examples/scripts/read_from_neo4j.py --host localhost --bolt_port 7687 \ --username \ --password \ --filter subject_category=activity_and_behavior \ --filter edge_label=predisposes \ --filter object_category=disease ``` - Total number of nodes loaded: 1960 - Total number of edges loaded: 5493 ### 6. Get all chemical substances and the diseases that they cause ``` python examples/scripts/read_from_neo4j.py --host localhost --bolt_port 7687 \ --username neo4j \ --password \ --filter subject_category=chemical_substance \ --filter edge_label=causes \ --filter object_category=disease ``` - Total number of nodes loaded: 37977 - Total number of edges loaded: 299806