I have a list of input genes. I want to retrieve all the pathways in which the genes are involved. How can I do this using a Neo4j Cypher query?

There is a tutorial  on using neo4j Cypher query here.

To retrieve all human pathways for a single gene (for example: P36897, the Uniprot identifier for TGFR1)

 
MATCH (n)-[:referenceDatabase]->(rd:ReferenceDatabase) 
WHERE toLower(rd.displayName) = toLower("UniProt") AND (n.identifier = "P36897" OR n.variantIdentifier ="P36897" OR "P36897" IN n.geneName OR "P36897" IN n.name) 
WITH DISTINCT n  
MATCH (pe:PhysicalEntity)-[:referenceEntity|referenceSequence|crossReference|referenceGene*]->(n) 
WITH DISTINCT pe 
MATCH (rle:ReactionLikeEvent)-[:input|output|catalystActivity|physicalEntity|entityFunctionalStatus|diseaseEntity|regulatedBy|regulator|hasComponent|hasMember|hasCandidate|repeatedUnit*]->(pe) 
WITH DISTINCT rle  
MATCH (:Species{taxId:"9606"})<-[:species]-(p:Pathway)-[:hasEvent]->(rle) 
RETURN DISTINCT p  
ORDER BY p.stId

If you have a list of genes, we suggest using UNWIND neo4j cypher to flatten your list back to individual items and then execute the query.