Medical Ontology

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Period ending 2026-09-21

4 new papers

A weekly snapshot of new work published in Medical Ontology.

Period ending 2026-09-14

7 new papers

A weekly snapshot of new work published in Medical Ontology.

Period ending 2026-09-07

4 new papers

A weekly snapshot of new work published in Medical Ontology.

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116 papers

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  1. BELXTR: Biomedical Entity Linking via Contextualized Token Retrieval

    Sep 22, 2026Samuele Garda, Ulf LeserMedical Ontology

  2. Integrating knowledge from case reports: a medical ontology based multimodal information system with structured summary

    Sep 17, 2026Shuyu Guo, Lan Huang, Yichen Liu +2Clinical NotesElectronic Health Records

  3. Hyperbolic Graph Representation Learning for Differential Diagnosis on Biomedical Knowledge Graphs

    Sep 16, 2026Pietro Miotto, Lucia Mellini, Tommaso Marzi +5Biomedical Knowledge GraphHypergraphs

  4. HypoKG: Evidence-Disciplined Biomedical Hypothesis Generation Beyond Endpoint Knowledge

    Sep 14, 2026Dominic Okonkwo, Adetayo Okunoye, Ismailcem Budak ArpinarBiomedical Knowledge GraphHypothesis Generation

  5. Biomedical Reference Generation Remains Unreliable across 26 Large Language Models

    Sep 14, 2026Maxim Topaz, Zhihong Zhang, Nir Roguin +3Biomedical TextLarge Language

  6. OntologyAligner: Ontology-Aligned Retrieval and Hierarchy-Guided Large Language Model Reranking for Biomedical Ontology Normalization

    Sep 9, 2026Jie Song, Zhichuan Xu, Ziyu Lu +8Medical OntologyOntology

  7. OntologyBench: Can Dense Retrieval Satisfy Structured Biomedical Constraints?

    Sep 8, 2026Xiao Yu Cindy Zhang, Wyeth Wasserman, Jian ZhuMedical OntologyBiomedical Text

  8. Model Retirement Creates Reproducibility Risk in Biomedical AI Publications

    Sep 7, 2026Nathan Wolfrath, Meghan Conroy, Thomas Kosten +7Biomedical TextReproducibility

  9. Coupled Tensor-Tensor Completion Method with Applications in Drug Repurposing

    Sep 2, 2026Maryam Bagherian, Albert Hung, Ivo Dinov +1Tensor CompletionDrug Discovery

  10. AlphaRAD: Grounded Zero-Shot Classification in Chest Radiology via αα-Corrected Binary Cross Entropy and Factorized Latent Supervision

    Sep 1, 2026Jianzhong You, Yuan Gao, Chris McIntoshChest RadiographyMedical Vision-Language Models

  11. Bridging Lexical Divergence: LLM-Assisted, Cost-Efficient, Zero-shot Scientific Entity Linking

    Aug 31, 2026Md Rasel Khondokar, Qiao Qiao, Farjana Sultana Samia +3Medical OntologyScientific Discovery

  12. Configurable Semantic Chunking for Biomedical Information Extraction in Retrieval-Augmented Generation

    Aug 31, 2026Riya Ahuja, Tim Kacprowski, Roya Shiasi SardoabiBiomedical TextChunk

  13. Responsible Integration of AI in Cancer Genomics: Barriers, Risks, and Pathways to Trustworthy Clinical Translation

    Aug 31, 2026Bahar İlgen, Yiannos Tolias, Denise Kühnert +5Cancer Genome AtlasTrustworthy Artificial Intelligence

  14. AdaPath: Query-Adaptive Path-Finding via Path-Bank for Multi-Hop Implicit Biomedical KGQA

    Aug 31, 2026Jun Hyeong Kim, Dongki Kim, Yinhua Piao +1Biomedical Knowledge GraphMulti-Hop Reasoning

  15. Quantitative Evidence Mining for Plausibility-Aware Biomedical AI: A Narrative Review and Conceptual Framework

    Aug 31, 2026Negin Sadat Babaiha, Stefan Geissler, Marie-Christine Simon +2Biomedical KnowledgeSystematic Review

  16. INTERVenE: Temporal-Abstraction-Interval Based Transformers for Short-Horizon Medical Event Prediction

    Aug 30, 2026Shahar Oded, Yuval ShaharClinical PredictionMimic-Iv Datasets

  17. En-ViMedNER: An English-Vietnamese Parallel Biomedical Corpus with UMLS Semantic Type Annotations

    Aug 30, 2026Nhu Vo, Phuong Nguyen, Nu Uyen Phuong Le +4Medical OntologyNamed-Entity Recognition

  18. Most biomedical publications show signs of LLM-assisted writing

    Aug 11, 2026Lena Holzwarth, Rita González-Márquez, Dmitry KobakAi-Assisted WritingBiomedical Text

  19. MolBioKG: Grounding Out-of-Graph Molecules in Biomedical Knowledge Graphs via Multi-Resolution Structural Anchoring

    Aug 7, 2026Yiming Zhang, Hikaru Shindo, Shuan Chen +5Biomedical Knowledge GraphMolecular Graphs

  20. MetaboLLM: a metabolomics-specialized large language model for biochemical knowledge integration and predictive metabolite graph construction

    Aug 6, 2026Dohyun Ku, Min Gu Kwak, Francisco J. Pasquel +1MetabolicBiomedical Knowledge Graph

  21. Research Assistant: AstraZeneca's Agentic System for R&D

    Aug 6, 2026Piotr Grabowski, Mohamed Alameen, Jorge Bretones +16AutoresearchAgentic Systems

  22. THBKG: A Temporal Biomedical Knowledge Graph for Decision-Aligned Clinical Advancement Prediction

    Aug 6, 2026Pui Chung Siu, Claudia Cabrera, Mani Mudaliar +1Biomedical Knowledge GraphClinical Prediction

  23. BioM-JEPA: joint-embedding prediction of graph-connected gene blocks in single cells

    Aug 6, 2026Yuhao Wang, Zelin Zang, Yuxuan Liu +2Single-Cell Rna SequencingJoint-Embedding Predictive Architectures

  24. Neighborhood-Aware Dual Biomedical Entity Linking

    Aug 4, 2026Yicheng Tao, Jie LiuMedical OntologyEntities

  25. Consensus Measures for Unstructured Biomedical Text Annotations

    Aug 4, 2026Pascal Wullschleger, Christian Kreis, Martin A. Walter +2Inter-Rater VariabilityMedical Ontology

  26. When Retrieval Helps and Distracts: Evaluating Evidence-Generating LLMs for Biomedical Claim Verification

    Aug 2, 2026Pritam Deka, Prabhjot SinghBiomedical Text

  27. GraphRareBench: An Auditable Graph-Evidence Benchmark for Phenotype-Driven Rare-Disease Diagnosis

    Jul 27, 2026Guiling Guo, Jia Yang, Jiahao Xu +3Rare DiseaseDiagnostic Benchmark

  28. EviDAG: Auditable Causal DAG Authoring with Biomedical Literature

    Jul 23, 2026Yi-han Sheu, Michael R. Steigman, Yu Zhou +3Causal ReasoningReasoning Graphs

  29. Plausibility-Driven Prioritization of Candidate Biomedical Annotations

    Jul 22, 2026Emanuele Cavalleri, Miad Alavinezhad, Dario Malchiodi +1Biomedical Knowledge GraphMedical Ontology

  30. OntoBook: Ontology-Grounded Synthetic Textbooks for Medical Encoder Pretraining

    Jul 21, 2026Rian Touchent, Éric de la ClergerieMedical OntologyInternational Classification Of Disease Codes

  31. Benchmarking Resource-Efficient LLMs for Research Topic Ontology Generation in the Biomedical Field

    Jul 20, 2026Tanay Aggarwal, Angelo Salatino, Francesco Osborne +1Medical OntologyOntology

  32. CoDiffGRN: Rethinking Gene Regulatory Network Inference via the BEELINE-KGC Benchmark and Co-evolutionary Discrete Diffusion

    Jul 14, 2026Jiaze Song, Runhao Zhao, Minghao Xu +2Gene-Regulatory NetworksBiomedical Knowledge Graph

  33. FAIR GraphRAG: A Retrieval-Augmented Generation Approach for Semantic Data Analysis

    Jul 13, 2026Marlena Flüh, Soo-Yon Kim, Carolin Victoria Schneider +1Graph-Based Retrieval Augmented GenerationBiomedical Knowledge Graph

  34. Drift-Aware Temporal Graph Rewiring (DATGR) for Adaptive Semantic Modeling in Biomedical Text

    Jul 9, 2026Bharathwaj Vijayakumar, Sahana K. VaradarajuBiomedical TextGeo-Contextual Alignment

  35. From Voting to Agent Collaboration: Answer-Type-Aware LLM Pipelines for BioASQ 14b

    Jul 7, 2026Taeyun Roh, Eunha Lee, Wonjune Jang +3Medical OntologyLarge Language Model Pipelines

  36. Canopy: A Heterograph Foundation Model for Metabolic Engineering

    Jul 7, 2026Jake Bowden, Laurence Legon, Satnam SuraeMetabolicBiomedical Knowledge Graph

  37. GlaKG: A Biomarker-Centric Fundus Knowledge Graph for Explainable Glaucoma Diagnosis and Risk Assessment

    Jul 6, 2026Cheng Huang, Jia Zhang, Yi Jiang +7BiomarkerBiomedical Knowledge Graph

  38. Predicting Therapeutic Outcome via Aligning Patient-Specific Knowledge Graph and Gene-Level Perturbation Representations

    Jul 6, 2026Dongmin Bang, Sugyun An, Inyoung Sung +3Spatial TranscriptomicsBiomedical Knowledge Graph

  39. CoFEND: A Cross-Modal Fusion End-to-End Network for Cold-Start Drug-Drug Interaction Prediction

    Jul 3, 2026Di Wu, Hongyi Sun, Haichao Xu +3Drug-Drug InteractionsClinical Prediction

  40. MKGR: Multimodal Knowledge-Graph Representation Learning for Cold-Start Protein-Protein Interaction Prediction

    Jul 2, 2026Wenbo ZhangProteinBiomedical Knowledge Graph

  41. MolSafeEval: A Benchmark for Uncovering Safety Risks in AI-Generated Molecules

    Jul 1, 2026Tong Xu, Xinzhe Cao, Zhihui Zhu +2Safety EvaluationSafety

  42. Cross-Domain Feature Expansion for Tabular Medical Data via Knowledge Graphs Injection

    Jun 30, 2026Mengying Zhou, Yongjie Yin, Haoyan Xin +2Biomedical Knowledge GraphKnowledge Graphs

  43. Managing Map Cardinality in Automatic Disease Classification Mapping: Balancing Precision, Recall and Coverage

    Jun 29, 2026Santosh Purja Pun, Oliver Obst, Jim Basilakis +1International Classification Of Disease CodesDisease Detection

  44. KG-TRACE: A Neuro-Symbolic Framework for Mechanistic Grounding in Antimicrobial Resistance Prediction

    Jun 24, 2026Naman Garg, Sarika Jain, Sourav Yadav +4GenomicsClinical Prediction

  45. Less is More: Quality-Aware Training Data Selection for Scientific Summarization

    Jun 23, 2026Maria Nefeli Paraskevopoulou, Tatiana Passali, Grigorios TsoumakasSummarizationBiomedical Text

  46. Stable-Shift: Biologically Structured Prediction of Transcriptional Responses to Unseen Gene Perturbations

    Jun 22, 2026Sajib Acharjee Dip, Liqing ZhangSpatial TranscriptomicsSingle-Cell Rna Sequencing

  47. TTFT-Aware Graph Chain-of-Thought:Distance-Indexed Neural A* for Low-Hallucination Multi-Hop Medical Reasoning

    Jun 22, 2026Bechir Dardouri, Kaïs Zhioua, Yassine MsaddakGraph-Llm JointBiomedical Knowledge Graph

  48. Explanation-Guided Medical Named Entity Recognition with Stability and Boundary Awareness for Atopic Dermatitis

    Jun 22, 2026Xueguang Li, Di Lin, Xue Jiang +2Medical OntologyNamed-Entity Recognition

  49. OpenBioRQ: Unsolved Biomedical Research Questions for Agents

    Jun 20, 2026Minbyul JeongBiomedical KnowledgeMulti-Hop Question Answering Benchmarks

  50. BioInsight: Multi-Agent Orchestration for Interactive Biomedical Knowledge Discovery

    Jun 19, 2026Jieyi Wang, Bingxuan Li, Nanyi Jiang +9Biomedical KnowledgeBiomedical Knowledge Graph

  51. Weaving Multi-Source Evidence for Biomedical Reasoning: The BioMedHop Benchmark and BioWeave Framework

    Jun 15, 2026Xingyu Tan, Shiyuan Liu, Xiaoyang Wang +5Biomedical Knowledge GraphMulti-Hop Reasoning

  52. DeepRoot: A KG-Coordinated Multi-Agent System for Therapeutic Reasoning over Historical Medical Texts

    Jun 14, 2026Zijian Carl Ma, Sean J. Wang, Sijbren Kramer +1Biomedical Knowledge GraphClinical Reasoning

  53. NeRD: Neuro-Symbolic Rule Distillation for Efficient Ontology-Grounded Chain-of-Thought in Medical Image Diagnosis

    Jun 14, 2026Hongxi Yang, Yiwen Jiang, Siyuan Yan +8Model InterpretabilityNeuro-Symbolic Framework

  54. Transfer Learning for FHIR Questionnaire Terminology Binding

    Jun 13, 2026Maxim GorshkovMedical OntologyLarge Language Model Pipelines

  55. Semantic Reasoning in Medicine: The Role of Knowledge Graphs Across Five Key Domains

    Jun 13, 2026Haniye Sherafatmandjoo, Mohammad Akbari, Zahed RahmatiBiomedical Knowledge GraphKnowledge Graphs

  56. Applicability Condition Extraction for Therapeutic Drug-Disease Relations

    Jun 12, 2026Guanting Luo, Noriki Nishida, Yuji Matsumoto +1Biomedical TextDrug-Drug Interactions

  57. A PubMed-Scale Dataset of Structured Biomedical Abstracts

    Jun 9, 2026Chia-Hsuan Chang, Haerin Song, Brian Ondov +1Biomedical Text

  58. Detecting Speculative Language in Biomedical Texts using Recurrent Neural Tensor Networks

    Jun 9, 2026Dhruv DixitBiomedical TextRecurrent Neural Networks

  59. Invisible to humans, visible to machines: a preregistered audit of Unicode fidelity across four biomedical bibliographic APIs

    Jun 8, 2026Przemysław CzumaReal Datacite DoisBiomedical Text

  60. Knowledge Graphs and Reasoning LLMs for Finding Simple Yet Effective Transcriptomic Perturbation Predictors

    Jun 7, 2026Jake Fawkes, Liam Hodgson, Jason HartfordBiomedical Knowledge GraphSpatial Transcriptomics