Knowledge4COVID-19: A semantic-based approach for constructing a COVID-19 related knowledge graph from various sources and analyzing treatments' toxicities

Knowledge Graphs in Pharmacovigilance: A Scoping Review

PURPOSE

To critically assess the role and added value of knowledge graphs in pharmacovigilance, focusing on their ability to predict adverse drug reactions.

METHODS

A systematic scoping review was conducted in which detailed information, including objectives, technology, data sources, methodology, and performance metrics, were extracted from a set of peer-reviewed publications reporting the use of knowledge graphs to support pharmacovigilance signal detection.

FINDINGS

The review, which included 47 peer-reviewed articles, found knowledge graphs were utilized for detecting/predicting single-drug adverse reactions and drug-drug interactions, with variable reported performance and sparse comparisons to legacy methods.

IMPLICATIONS

Research to date suggests that knowledge graphs have the potential to augment predictive signal detection in pharmacovigilance, but further research using more reliable reference sets of adverse drug reactions and comparison with legacy pharmacovigilance methods are needed to more clearly define best practices and to establish their place in holistic pharmacovigilance systems.

Knowledge graphs in psychiatric research: Potential applications and future perspectives

BACKGROUND

Knowledge graphs (KGs) remain an underutilized tool in the field of psychiatric research. In the broader biomedical field KGs are already a significant tool mainly used as knowledge database or for novel relation detection between biomedical entities. This review aims to outline how KGs would further research in the field of psychiatry in the age of Artificial Intelligence (AI) and Large Language Models (LLMs).

METHODS

We conducted a thorough literature review across a spectrum of scientific fields ranging from computer science and knowledge engineering to bioinformatics. The literature reviewed was taken from PubMed, Semantic Scholar and Google Scholar searches including terms such as "Psychiatric Knowledge Graphs", "Biomedical Knowledge Graphs", "Knowledge Graph Machine Learning Applications", "Knowledge Graph Applications for Biomedical Sciences". The resulting publications were then assessed and accumulated in this review regarding their possible relevance to future psychiatric applications.

RESULTS

A multitude of papers and applications of KGs in associated research fields that are yet to be utilized in psychiatric research was found and outlined in this review. We create a thorough recommendation for other computational researchers regarding use-cases of these KG applications in psychiatry.

CONCLUSION

This review illustrates use-cases of KG-based research applications in biomedicine and beyond that may aid in elucidating the complex biology of psychiatric illness and open new routes for developing innovative interventions. We conclude that there is a wealth of opportunities for KG utilization in psychiatric research across a variety of application areas including biomarker discovery, patient stratification and personalized medicine approaches.

Constructing a knowledge graph for open government data: the case of Nova Scotia disease datasets

The majority of available datasets in open government data are statistical. They are widely published by various governments to be used by the public and data consumers. However, most open government data portals do not provide the five-star Linked Data standard datasets. The published datasets are isolated from one another while conceptually connected. This paper constructs a knowledge graph for the disease-related datasets of a Canadian government data portal, Nova Scotia Open Data. We leveraged the Semantic Web technologies to transform the disease-related datasets into Resource Description Framework (RDF) and enriched them with semantic rules. An RDF data model using the RDF Cube vocabulary was designed in this work to develop a graph that adheres to best practices and standards, allowing for expansion, modification and flexible re-use. The study also discusses the lessons learned during the cross-dimensional knowledge graph construction and integration of open statistical datasets from multiple sources.

Narrative Graph: Telling Evolving Stories Based on Event-centric Temporal Knowledge Graph

As the main channel for people to obtain information and express their opinions, online media generate a huge amount of unstructured news documents every day and make it difficult for people to perceive major societal events and grasp the evolution of events. Previous studies on storyline generation are generally based on document clustering without considering event arguments and relations between events. Event-centric knowledge graph has been used to facilitate the construction of news documents to form structured event representation. Although some studies have attempted to construct timelines based on event-centric knowledge graphs, it is difficult for timelines to depict the complex structures of event evolution. In this paper, we try to represent news documents as an event-centric knowledge graph, and compress the whole knowledge graph into salient complex events in temporal order to generate storylines named narrative graph. We first collect news documents from news platforms, construct an event ontology, and build an event-centric knowledge graph with temporal relations. Graph neural network is used to detect events, while BERT fine-tuning is leveraged to identify temporal relations between events. Then, a novel generation framework of narrative graph with constraints of coherence and coverage is proposed. In addition, a case study is implemented to demonstrate how to utilize narrative graph to analyze real-world event. The experiment results show that our approach significantly outperforms the baseline approaches.