Can Deep Research Agents Retrieve and Organize? Evaluating the Synthesis Gap with Expert Taxonomies

Code

• github.com/konglonggefdu/taxobench
  OfficialIn paper★ 7

Abstract

Deep Research Agents increasingly automate survey generation, yet whether they match human experts in two core abilities remains unclear: retrieving essential papers and organizing them into expert-like taxonomies. Existing benchmarks emphasize writing quality or citation correctness, while standard clustering metrics fail to capture hierarchical taxonomy structure. We introduce TaxoBench, a benchmark built from 72 highly-cited LLM surveys containing expert-authored taxonomy trees with 3,815 papers mapped to paper categories as ground truth. TaxoBench evaluates both abilities: (1) retrieval, measuring whether agents retrieve expert-cited papers; and (2) organization, assessed at two levels: the leaf-level measures paper-to-category assignment, while the hierarchy-level measures taxonomy structure via novel metrics -- Unordered Semantic Tree Edit Distance (US-TED/US-NTED) and Semantic Path Similarity (Sem-Path). TaxoBench supports two evaluation modes: Deep Research tests end-to-end capability given only a topic, while Bottom-Up provides the expert paper set to isolate organization ability. Evaluating 7 Deep Research Agents and 12 frontier LLMs reveals a dual bottleneck: the best agent retrieves only 20.92% of expert-cited papers, and even with perfect input, the best model achieves only 31.24% ARI with substantial structural gaps. Our benchmark is publicly available at https://github.com/KongLongGeFDU/TaxoBench

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