A multi-layered knowledge base system and a processing method thereof are provided. In the system, semantic space learning of converting learning data into a semantic vector, which is a vector of semantic space, by learning a transformation function based on a plurality of learning data is performed. Then, relational knowledge learning of acquiring a relation between the semantic vectors by learning a relation function based on the semantic vectors obtained by the semantic space learning is performed. The acquired relation is converted into graph knowledge. The graph knowledge uses the relation as an edge and the semantic vector corresponding to the relation as a node.