Automated domain-specific healthcare knowledge graph curation framework: Subarachnoid hemorrhage as phenotype. (1st May 2020)

• Record Type: Journal Article
• Authors: Malik, Khalid Mahmood; Krishnamurthy, Madan; Alobaidi, Mazen; Hussain, Maqbool; Alam, Fakhare; Malik, Ghaus
• Is Part Of: Expert systems with applications. Volume 145(2020)
• Publication Date: 2020-05-01
• Subjects: Knowledge Graph -- Ontology -- Electronic Health Records -- Intracranial Aneurysm -- Association Rules -- Ensemble Learning -- Subarachnoid Hemorrhage Stroke; Expert systems (Computer science) -- Periodicals; Systèmes experts (Informatique) -- Périodiques; Electronic journals; 006.33
• DOI: 10.1016/j.eswa.2019.113120
• Languages: English
• ISSNs: 0957-4174

Abstract

Highlights: A novel automated domain-specific knowledge graph curation framework. First attempt towards knowledge graph construction for subarachnoid hemorrhage stroke. Enables extraction of concepts, relations, individual & cohort graphs, and predictive knowledge. Uses ontology-based information extraction, ensemble learning and relation embedding techniques. Competitive results in most of the tasks of knowledge graph generation. Abstract: To derive meaningful insights from voluminous healthcare data, it is essential to convert it into machine understandable knowledge. Currently, machine understandable domain specific healthcare knowledge curation framework does not exist for complex neurological diseases such as subarachnoid hemorrhage stroke. We envisage futuristic clinical decision support systems and tools backed with such knowledge will aide in complex neurological disease prognosis, diagnosis, and treatment. Existing knowledge graphs (KGs) only contain concepts and relationships between them and offer this knowledge to information extraction and knowledge management applications. However, the proposed domain-specific automated KG curation framework enables extraction of concepts, relationships, individual and cohort graphs, and predictive knowledge. By employing ontology-based information extraction, ensemble learning and word embedding based on skip-gram techniques on structured and unstructured data from electronic health records of 1025 patients with an intracranial aneurysm, this paper proposes a novel fully automated framework to curate knowledge graph, consisting of concepts, different hierarchical and non-hierarchical relationships, and predictive rules for prediction of subarachnoid hemorrhage. The evaluation shows that proposed framework achieves 78% precision and 71% recall respectively, for concept extraction from clinical text. Taxonomic relationships evaluation had precision and recall of 68%, and 95%, respectively. Evaluation of knowledge to predict unruptured status using validation dataset shows accuracy, precision, recall, of 73%, 76%, and 90% respectively.