The paper introduces a modular agentic-AI platform that transforms heterogeneous CMC process-development documents into a dual-layer knowledge graph. The base layer creates a lexical Document‑Section‑Chunk hierarchy, while the intelligence layer extracts ontology‑aligned entities and links cross‑document concepts, all anchored by provenance. LLM agents navigate these layers to answer queries, and a novel three‑tier evaluation protocol demonstrates high retrieval‑augmented generation performance on proprietary data from a Sanofi program.
By Reza Amirmoshiri, Faryad Sahneh, Yasser Jangjou
arXiv:2608. 06713v1 Announce Type: new Abstract: Biomedical knowledge graphs (KGs) accelerate drug discovery, but standard pipelines assume query molecules already exist as graph entities, leaving unregistered molecules disconnected.
By Yiming Zhang, Hikaru Shindo, Shuan Chen, Kaushalya Madhawa, Jun Jin Choong, Yuna Oikawa, Takashi Fujiwara, Keisuke Ozawa
arXiv:2609.06779v1 Announce Type: cross
Abstract: Drug repurposing aims to identify new therapeutic uses for existing compounds and, compared with de novo drug discovery, offers a faster and more cos...
By Zijie Liu, Hongxuan Li, Zhen Tan, Jinhao Duan, Baixiang Huang, Zunpeng Liu, Kai Shu, Tianlong Chen
arXiv:2608.30556v1 Announce Type: new
Abstract: Path-finding over knowledge graphs has become an effective way to ground LLM reasoning on multi-hop questions. However, biomedical QA introduces two di...
By Jun Hyeong Kim, Dongki Kim, Yinhua Piao, Sung Ju Hwang
The paper introduces a novel LLM‑driven multi‑agent pipeline that converts relational databases into graph databases by standardizing table and column names and iteratively refining the graph schema through ETL, Analyzer, and Graph agents. The resulting graph database meets accuracy, groundedness, and faithfulness criteria and shows significant performance gains, achieving 85.6% Q&A accuracy—12.12% higher than an SQL agent on PostgreSQL—and reducing latency by roughly threefold on a BFSI dataset. This demonstrates an efficient, automated method for transforming tabular data into a more intuitive and faster‑executing graph format.
By Dinh-Khanh Pham, Quy-Anh Dang, Lam Mai Thanh, Khanh Bui, Truong-Son Hy
arXiv:2610.14465v1 Announce Type: cross
Abstract: Structured knowledge retrieval acquires task-relevant evidence from structured knowledge sources for downstream tasks. Existing methods rely on uncon...
By Zhisheng Qi, Haoyu Han, Jiaxi Li, Bing He, Huiyuan Chen, Franck Dernoncourt, Ryan A. Rossi, Mahantesh M. Halappanavar, Jin Lu, Yu Zhang, Tianming Liu, Yu Wang
arXiv:2606. 05415v1 Announce Type: cross Abstract: Real-world data spans tables, documents, and semi-structured files with implicit semantics.
By Padmaja Jonnalagedda, Yuguang Yao, Xiang Gao, Hilaf Hasson, Kamalika Das
arXiv:2606. 30133v1 Announce Type: cross Abstract: Retrieval-augmented generation built on knowledge graphs (Graph RAG) outperforms flat passage retrieval on multi-hop question answering by leveraging graph structure.
By Illia Makarov, Mykola Glybovets
LingShu is a large-scale, symptom‑centric knowledge graph that bridges Traditional Chinese Medicine (TCM) and modern biomedicine. It contains 17.33 million entity records and 39.47 million relation records, combining 17.19 million semantic triples with 22.29 million contextualized quadruples to encode conditional medical associations. The graph integrates data from electronic medical records, TCM texts, biomedical ontologies, and curated knowledge bases, and is supported by a web platform offering visualization, reasoning, and evidence‑grounded question answering.
By Rui Hua, Zixin Shu, Kai Chang, Dengying Yan, Jianan Xia, Hui Zhu, Shujie Song, Shurui Yang, Tongxin Wang, Yue Yin, Yu Wei, Lijuan Pei, Yunhui Hu, Hao Xu, Mingzhong Xiao, Xiaodong Li, Haibin Yu, Runshun Zhang, Wenjia Wang, Baoyan Liu, Xuezhong Zhou
arXiv:2608. 14228v1 Announce Type: new Abstract: Life science knowledge graphs make large collections of structured data available through SPARQL, but each resource uses its own schema, identifiers, and links.
By Yiming Zhang, Koji Tsuda
The paper introduces QRAKEN, a training‑free, ontology‑agnostic neurosymbolic pipeline that grounds natural‑language queries to RDF knowledge graphs using empirical graph evidence instead of schema expectations. QRAKEN distills a compact TTQL representation offline, then uses it online to guide large language models, providing deterministic checks and an iterative refinement loop. On the CK25 benchmark, QRAKEN achieves a strict F1 of 0.643–0.652 with GPT‑4.1 mini and GPT‑5.4, outperforming state‑of‑the‑art systems and demonstrating the effectiveness of empirical pattern distillation over schema‑only approaches.
By Remo Grillo, Lukas Klic, Giovanni Colavizza
arXiv:2609.35549v2 Announce Type: replace
Abstract: Rare-disease diagnosis is a long-tail reasoning problem: phenotypes are incomplete, individual disorders are sparsely documented, and relevant evid...
By Bo Zhang, Yuchen Wang, Dongbai Li, Matthew Yu Heng Wong, Qingkai Zeng, Lijun Wang, Tien-Yin Wong, Peng Cui, Tianyu Liu