OptimusKG is a multimodal biomedical labeled property graph that integrates structured and semi‑structured resources to preserve detailed, type‑specific metadata across molecular, anatomical, clinical, and environmental domains. The graph contains nearly 191,000 nodes, over 21.8 million edges, and more than 67 million property instances derived from 18 ontologies, with a top‑level schema that enforces node and edge constraints while retaining granular provenance. Validation using the PaperQA3 agent found that 70.0% of sampled edges are supported by literature evidence, and the graph offers a standardized resource for machine learning, knowledge‑grounded retrieval, and hypothesis generation in biomedical research.
By Lucas Vittor, Ayush Noori, I\~naki Arango, Joaqu\'in Polonuer, Sam Rodriques, Andrew White, David A. Clifton, Marinka Zitnik
arXiv:2608. 06402v1 Announce Type: new Abstract: Community detection is a fundamental task in graph analytics that aims to identify cohesive groups of entities with similar behaviors or interests.
By Aoting Zeng, Kai Wang, Jianwei Wang, Yuxiang Sun, Yizhang He, Wenjie Zhang
arXiv:2601. 08187v3 Announce Type: replace Abstract: Large language models (LLMs) have demonstrated promising capabilities in Text-Attributed Graph (TAG) understanding.
By Zijun Di, Bin Lu, Huquan Kang, Luoyi Fu, Jiaxin Ding, Xiaoying Gan, Lei Zhou, Xinbing Wang
arXiv:2507. 10005v2 Announce Type: replace Abstract: In recent years, graph-based machine learning techniques, such as reinforcement learning and graph neural networks, have garnered significant attention.
By Yash Arya, Sang Hoon Lee
The paper shows that large language models (LLMs) naturally organize their hidden state manifolds into small‑world networks, enabling efficient multi‑hop reasoning. By converting similarity matrices into unweighted graphs, the authors trace connectivity between distant semantic anchors and find a sharp topological phase transition: deep reasoning layers compress conceptual distances into paths bounded by six semantic hops, while early syntactic layers remain fragmented. The framework is applied to zero‑shot hallucination detection in Retrieval‑Augmented Generation, revealing that factual generations preserve a ~3‑hop structure, whereas hallucinations collapse the topology.
By Md. Faiyaz Abdullah Sayeedi
arXiv:2608. 06253v1 Announce Type: new Abstract: Metabolomics knowledge is distributed across heterogeneous resources and remains difficult to translate into predictive representations.
By Dohyun Ku, Min Gu Kwak, Francisco J. Pasquel, Jing Li