盘基网柄菌文献检索基准：dictyBase 案例研究
原标题：Benchmarking Literature Retrieval for a Model Organism: A Dictyostelium Case Study
AI 摘要
研究者基于模式生物数据库 dictyBase 构建了一个面向盘基网柄菌（Dictyostelium）的文献检索基准，包含策展人编写的生物查询、对应的 PubMed 文章及结构化基因注释。研究考察了交叉编码器重排序、基因感知查询扩展以及摘要与全文检索三种因素，发现重排序和基因感知查询扩展能选择性提升检索效果，全文分块在摘要缺失证据时显著提升召回与排序表现。数据与代码已在 GitHub 和 Zenodo 公开。
正文节选
Benchmarking Literature Retrieval for a Model Organism: A Dictyostelium Case Study Abstract Biological literature retrieval systems are often developed and evaluated using broad biomedical corpora and general-purpose search tasks. However, many curated knowledge bases operate in narrower model-organism domains, where the literature is sparse and terminology is organism-specific. We introduce a retrieval benchmark from dictyBase for Dictyostelium, a model organism in cell and developmental biolog