Article

A Biomedical Benchmark and Modular RAG Framework for Text2Cypher

2026-07-27

Abstract excerpt

<title>Abstract</title> <p>Background Biomedical Knowledge Graphs (bioKGs) are increasingly used to integrate heterogeneous biomedical data, including genomic interactions, disease associations, and drug–target relationships. Property graph databases, such as Neo4j, provide an effective framework for representing and querying these data through the Cypher query language. However, writing Cypher queries requires s...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: ef416212-2989-5103-95a5-00d611d7f656
DOI: 10.21203/rs.3.rs-10463153/v1

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

A Biomedical Benchmark and Modular RAG Framework for Text2CypherDOI 10.21203/rs.3.rs-10463153/v1Read

CARDBiomedBench: A Benchmark for Evaluating Large Language Model Performance in Biomedical ResearchSemantic proximity Read

PGxRAG: A Retrieval Augmented Generation supported Pharmacogenomics AssistantSemantic proximity Read

SKiM-GPT: Combining Biomedical Literature-Based Discovery with Large Language Model Hypothesis EvaluationSemantic proximity Read

An Empirical Analysis of Fine-Tuning Large Language Models on Bioinformatics Literature: PRSGPT and BioStarsGPTSemantic proximity Read

OncoRAG: Graph-Based Retrieval Enabling Clinical Phenotyping from Oncology Notes Using Local Mid-Size Language ModelsSemantic proximity Read

Leveraging a Billion-Edge Knowledge Graph for Drug Re-purposing and Target Prioritization using Genomically-Informed SubgraphsSemantic proximity Read

Performance Characteristics of Reasoning Large Language Models for Evidence Extraction from Clinical Genomics LiteratureSemantic proximity Read

HEAL-KGGen: A Hierarchical Multi-Agent LLM Framework with Knowledge Graph Enhancement for Genetic Biomarker-Based Medical DiagnosisSemantic proximity Read

BioKG Explorer: Interactive Visual Analytics for Biomedical Knowledge Graph Exploration over PrimeKGSemantic proximity Read

Development and validation of Retrieval Augmented Generation (RAG) and GraphRAG for complex clinical casesSemantic proximity Read

Benchmarking Large Language Models for Replication of Guideline-Based PGx RecommendationsSemantic proximity Read

A Framework for Automated Construction of Heterogeneous Large-Scale Biomedical Knowledge GraphsSemantic proximity Read