Challenge: a new pipeline for compositional multi-hop reasoning in large language models is being developed . a recent study shows that even state-of-the-art models struggle with compositional reasoning .
Approach: They propose a pipeline that builds benchmarks from proprietary or public data . they use generative reasoning models, chemical named-entity recognition, and external knowledge bases to build knowledge graphs.
Outcome: The proposed pipeline compares state-of-the-art models with and without retrieval augmentation . the pipeline is generalizable with fine-tuning, enabling creation of challenging benchmarks .

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Challenge: Experimental protocols in organic synthesis specify not only the intended transformation, but also an executable sequence of operations and conditions.
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From Generalist to Specialist: A Survey of Large Language Models for Chemistry (2025.coling-main)

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Challenge: Existing studies on pretraining of LLMs on extensive web-based texts are insufficient for advanced scientific discovery, especially in chemistry.
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Seemingly Plausible Distractors in Multi-Hop Reasoning: Are Large Language Models Attentive Readers? (2024.emnlp-main)

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Challenge: State-of-the-art Large Language Models (LLMs) are accredited with a number of different capabilities, including reading comprehension, mathematical and reasoning skills, and possessing scientific knowledge.
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MolErr2Fix: Benchmarking LLM Trustworthiness in Chemistry via Modular Error Detection, Localization, Explanation, and Correction (2025.emnlp-main)

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Challenge: Large Language Models (LLMs) have shown growing potential in molecular sciences, but they often produce chemically inaccurate descriptions and struggle to recognize or justify potential errors.
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CheMM-R1: Enhancing Chemical Structure Recognition and Elucidation with Reasoning Multimodal Large Language Models (2026.findings-acl)

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Challenge: Existing multimodal large language models lack domain-specific expertise to perform chemical tasks.
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ToolHop: A Query-Driven Benchmark for Evaluating Large Language Models in Multi-Hop Tool Use (2025.acl-long)

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Challenge: Effective evaluation of multi-hop tool use is critical for analyzing the understanding, reasoning, and function-calling capabilities of large language models.
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On the Challenges of Evaluating Compositional Explanations in Multi-Hop Inference: Relevance, Completeness, and Expert Ratings (2021.emnlp-main)

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Challenge: a large corpus of domain-expert relevance ratings augments a corpus for compositional explanations . a writer's study shows that the evaluations of compositional inference models underestimate performance .
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BioHopR: A Benchmark for Multi-Hop, Multi-Answer Reasoning in Biomedical Domain (2025.findings-acl)

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Challenge: Existing benchmarks for multi-hop reasoning in biomedical domain are lacking . bioHopR provides benchmarks to evaluate multi-step reasoning in structured biomedic knowledge graphs .
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Do Large Language Models Latently Perform Multi-Hop Reasoning? (2024.acl-long)

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Challenge: Large Language Models (LLMs) latently perform multi-hop reasoning with complex prompts such as "The mother of the singer of ‘Superstition’ is".
Approach: They examine whether Large Language Models (LLMs) latently perform multi-hop reasoning with complex prompts such as "The mother of the singer of ‘Superstition’ is".
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Two Steps from Hell: Compositionality on Chemical LMs (2025.findings-emnlp)

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Challenge: Experiments with state-of-the-art ChemLLMs show significant performance drops in compositional tasks, highlighting the need for models that move beyond pattern recognition.
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