Kheirolah Rahsepar Fard

Ali Sarabadani, Kheirolah Rahsepar Fard, Hamid Dalvand

The paper introduces ExKG-LLM, a framework designed to automate the expansion of cognitive neuroscience knowledge graphs (CNKG) using large language models (LLMs). It addresses limitations in existing tools by enhancing accuracy, completeness, and usefulness in CNKG. The framework leverages a large dataset of scientific papers and clinical reports, applying state-of-the-art LLMs to extract, optimize, and integrate new entities and relationships. Evaluation metrics include precision, recall, and graph density. Results show significant improvements: precision (0.80, +6.67%), recall (0.81, +15.71%), F1 score (0.805, +11.81%), and increased edge nodes (21.13% and 31.92%). Graph density slightly decreased, reflecting a broader but more fragmented structure. Engagement rates rose by 20%, while CNKG diameter increased to 15, indicating a more distributed structure. Time complexity improved to O(n log n), but space complexity rose to O(n2), indicating higher memory usage. ExKG-LLM demonstrates potential for enhancing knowledge generation, semantic search, and clinical decision-making in cognitive neuroscience, adaptable to broader scientific fields.

Ali Sarabadani, Kheirolah Rahsepar Fard

The advent of large language models (LLMs) has revolutionized the integration of knowledge graphs (KGs) in biomedical and cognitive sciences, overcoming limitations in traditional machine learning methods for capturing intricate semantic links among genes, diseases, and cognitive processes. We introduce MultiCNKG, an innovative framework that merges three key knowledge sources: the Cognitive Neuroscience Knowledge Graph (CNKG) with 2.9K nodes and 4.3K edges across 9 node types and 20 edge types; Gene Ontology (GO) featuring 43K nodes and 75K edges in 3 node types and 4 edge types; and Disease Ontology (DO) comprising 11.2K nodes and 8.8K edges with 1 node type and 2 edge types. Leveraging LLMs like GPT-4, we conduct entity alignment, semantic similarity computation, and graph augmentation to create a cohesive KG that interconnects genetic mechanisms, neurological disorders, and cognitive functions. The resulting MultiCNKG encompasses 6.9K nodes across 5 types (e.g., Genes, Diseases, Cognitive Processes) and 11.3K edges spanning 7 types (e.g., Causes, Associated with, Regulates), facilitating a multi-layered view from molecular to behavioral domains. Assessments using metrics such as precision (85.20%), recall (87.30%), coverage (92.18%), graph consistency (82.50%), novelty detection (40.28%), and expert validation (89.50%) affirm its robustness and coherence. Link prediction evaluations with models like TransE (MR: 391, MRR: 0.411) and RotatE (MR: 263, MRR: 0.395) show competitive performance against benchmarks like FB15k-237 and WN18RR. This KG advances applications in personalized medicine, cognitive disorder diagnostics, and hypothesis formulation in cognitive neuroscience.

Ali Sarabadani, Kheirolah Rahsepar Fard, Hamid Dalvand

The purpose of this study is to introduce SKG-LLM. A knowledge graph (KG) is constructed from stroke-related articles using mathematical and large language models (LLMs). SKG-LLM extracts and organizes complex relationships from the biomedical literature, using it to increase the accuracy and depth of KG in stroke research. In the proposed method, GPT-4 was used for data pre-processing, and the extraction of embeddings was also done by GPT-4 in the whole KG construction process. The performance of the proposed model was tested with two evaluation criteria: Precision and Recall. For further validation of the proposed model, GPT-4 was used. Compared with Wikidata and WN18RR, the proposed KG-LLM approach performs better, especially in precision and recall. By including GPT-4 in the preprocessing process, the SKG-LLM model achieved a precision score of 0.906 and a recall score of 0.923. Expert reviews further improved the results and increased precision to 0.923 and recall to 0.918. The knowledge graph constructed by SKG-LLM contains 2692 nodes and 5012 edges, which are 13 distinct types of nodes and 24 types of edges.