# A Comprehensive Survey of Scientific Large Language Models and Their Applications in Scientific Discovery

arXiv: https://arxiv.org/abs/2406.10833 · HTML: https://mlsanity.com/paper/2406.10833/

## Key facts

- Cited by 96 papers in the map (data through 14 Oct 2026).
- Builds on 239 of its 392 references that are in the map.
- First posted on arXiv 16 Jun 2024.

## Builds on (most cited first, 30 of 239)

- [BERT: Pre-training of Deep Bidirectional Transformers for Language Understanding](https://mlsanity.com/paper/1810.04805/) (2018)
- [Learning Transferable Visual Models From Natural Language Supervision](https://mlsanity.com/paper/2103.00020/) (2021)
- [Language Models are Few-Shot Learners](https://mlsanity.com/paper/2005.14165/) (2020)
- [GPT-4 Technical Report](https://mlsanity.com/paper/2303.08774/) (2023)
- [Training language models to follow instructions with human feedback](https://mlsanity.com/paper/2203.02155/) (2022)
- [Exploring the Limits of Transfer Learning with a Unified Text-to-Text Transformer](https://mlsanity.com/paper/1910.10683/) (2019)
- [LLaMA: Open and Efficient Foundation Language Models](https://mlsanity.com/paper/2302.13971/) (2023)
- [RoBERTa: A Robustly Optimized BERT Pretraining Approach](https://mlsanity.com/paper/1907.11692/) (2019)
- [Semi-Supervised Classification with Graph Convolutional Networks](https://mlsanity.com/paper/1609.02907/) (2016)
- [Training Verifiers to Solve Math Word Problems](https://mlsanity.com/paper/2110.14168/) (2021)
- [DeepSeekMath: Pushing the Limits of Mathematical Reasoning in Open Language Models](https://mlsanity.com/paper/2402.03300/) (2024)
- [Measuring Massive Multitask Language Understanding](https://mlsanity.com/paper/2009.03300/) (2020)
- [BART: Denoising Sequence-to-Sequence Pre-training for Natural Language Generation, Translation, and Comprehension](https://mlsanity.com/paper/1910.13461/) (2019)
- [Measuring Mathematical Problem Solving With the MATH Dataset](https://mlsanity.com/paper/2103.03874/) (2021)
- [Dense Passage Retrieval for Open-Domain Question Answering](https://mlsanity.com/paper/2004.04906/) (2020)
- [Finetuned Language Models Are Zero-Shot Learners](https://mlsanity.com/paper/2109.01652/) (2021)
- [MMMU: A Massive Multi-discipline Multimodal Understanding and Reasoning Benchmark for Expert AGI](https://mlsanity.com/paper/2311.16502/) (2023)
- [BioBERT: a pre-trained biomedical language representation model for biomedical text mining](https://mlsanity.com/paper/1901.08746/) (2019)
- [Invariant Risk Minimization](https://mlsanity.com/paper/1907.02893/) (2019)
- [Large Language Models Encode Clinical Knowledge](https://mlsanity.com/paper/2212.13138/) (2022)
- [Challenging BIG-Bench Tasks and Whether Chain-of-Thought Can Solve Them](https://mlsanity.com/paper/2210.09261/) (2022)
- [MathVista: Evaluating Mathematical Reasoning of Foundation Models in Visual Contexts](https://mlsanity.com/paper/2310.02255/) (2023)
- [CheXpert: A Large Chest Radiograph Dataset with Uncertainty Labels and Expert Comparison](https://mlsanity.com/paper/1901.07031/) (2019)
- [SciBERT: A Pretrained Language Model for Scientific Text](https://mlsanity.com/paper/1903.10676/) (2019)
- [Solving Quantitative Reasoning Problems with Language Models](https://mlsanity.com/paper/2206.14858/) (2022)
- [What Disease does this Patient Have? A Large-scale Open Domain Question Answering Dataset from Medical Exams](https://mlsanity.com/paper/2009.13081/) (2020)
- [LLaVA-Med: Training a Large Language-and-Vision Assistant for Biomedicine in One Day](https://mlsanity.com/paper/2306.00890/) (2023)
- [MoleculeNet: A Benchmark for Molecular Machine Learning](https://mlsanity.com/paper/1703.00564/) (2017)
- [Domain-Specific Language Model Pretraining for Biomedical Natural Language Processing](https://mlsanity.com/paper/2007.15779/) (2020)
- [Publicly Available Clinical BERT Embeddings](https://mlsanity.com/paper/1904.03323/) (2019)

## Built on by (most cited first, 30 of 96)

- [ScienceAgentBench: Toward Rigorous Assessment of Language Agents for Data-Driven Scientific Discovery](https://mlsanity.com/paper/2410.05080/) (2024)
- [AgentReview: Exploring Peer Review Dynamics with LLM Agents](https://mlsanity.com/paper/2406.12708/) (2024)
- [From Automation to Autonomy: A Survey on Large Language Models in Scientific Discovery](https://mlsanity.com/paper/2505.13259/) (2025)
- [Transforming Science with Large Language Models: A Survey on AI-assisted Scientific Discovery, Experimentation, Content Generation, and Evaluation](https://mlsanity.com/paper/2502.05151/) (2025)
- [Position: Multimodal Large Language Models Can Significantly Advance Scientific Reasoning](https://mlsanity.com/paper/2502.02871/) (2025)
- [Curie: Toward Rigorous and Automated Scientific Experimentation with AI Agents](https://mlsanity.com/paper/2502.16069/) (2025)
- [PiFlow: Principle-Aware Scientific Discovery with Multi-Agent Collaboration](https://mlsanity.com/paper/2505.15047/) (2025)
- [Graphs Meet AI Agents: Taxonomy, Progress, and Future Opportunities](https://mlsanity.com/paper/2506.18019/) (2025)
- [LeMat-GenBench: A Unified Evaluation Framework for Crystal Generative Models](https://mlsanity.com/paper/2512.04562/) (2025)
- [Harnessing Large Language Models for Disaster Management: A Survey](https://mlsanity.com/paper/2501.06932/) (2025)
- [SciArena: An Open Evaluation Platform for Non-Verifiable Scientific Literature-Grounded Tasks](https://mlsanity.com/paper/2507.01001/) (2025)
- [Protein Large Language Models: A Comprehensive Survey](https://mlsanity.com/paper/2502.17504/) (2025)
- [Dream-VL & Dream-VLA: Open Vision-Language and Vision-Language-Action Models with Diffusion Language Model Backbone](https://mlsanity.com/paper/2512.22615/) (2025)
- [AgMMU: A Comprehensive Agricultural Multimodal Understanding Benchmark](https://mlsanity.com/paper/2504.10568/) (2025)
- [SafeScientist: Toward Risk-Aware Scientific Discoveries by LLM Agents](https://mlsanity.com/paper/2505.23559/) (2025)
- [Recitation over Reasoning: How Cutting-Edge Language Models Can Fail on Elementary School-Level Reasoning Problems?](https://mlsanity.com/paper/2504.00509/) (2025)
- [PhysGym: Benchmarking LLMs in Interactive Physics Discovery with Controlled Priors](https://mlsanity.com/paper/2507.15550/) (2025)
- [How Far Are AI Scientists from Changing the World?](https://mlsanity.com/paper/2507.23276/) (2025)
- [A Survey of Large Language Models for Text-Guided Molecular Discovery: from Molecule Generation to Optimization](https://mlsanity.com/paper/2505.16094/) (2025)
- [Benchmarking Multimodal LLMs on Recognition and Understanding over Chemical Tables](https://mlsanity.com/paper/2506.11375/) (2025)
- [SoSBench: Benchmarking Safety Alignment on Six Scientific Domains](https://mlsanity.com/paper/2505.21605/) (2025)
- [From Generalist to Specialist: A Survey of Large Language Models for Chemistry](https://mlsanity.com/paper/2412.19994/) (2024)
- [What Is That Talk About? A Video-to-Text Summarization Dataset for Scientific Presentations](https://mlsanity.com/paper/2502.08279/) (2025)
- [Scalable Bayesian Low-Rank Adaptation of Large Language Models via Stochastic Variational Subspace Inference](https://mlsanity.com/paper/2506.21408/) (2025)
- [Autonomous Agents for Scientific Discovery: Orchestrating Scientists, Language, Code, and Physics](https://mlsanity.com/paper/2510.09901/) (2025)
- [Toward Greater Autonomy in Materials Discovery Agents: Unifying Planning, Physics, and Scientists](https://mlsanity.com/paper/2506.05616/) (2025)
- [Measuring the Gap Between Human and LLM Research Ideas](https://mlsanity.com/paper/2607.01233/) (2026)
- [Ensembles of Low-Rank Expert Adapters](https://mlsanity.com/paper/2502.00089/) (2025)
- [Position: The ML Community Must Build an AI-Augmented Peer-Review Ecosystem](https://mlsanity.com/paper/2506.08134/) (2025)
- [Evolving Roles of LLMs in Scientific Innovation: Assistant, Collaborator, Scientist, and Evaluator](https://mlsanity.com/paper/2507.11810/) (2025)

## Abstract (arXiv)

In many scientific fields, large language models (LLMs) have revolutionized the way text and other modalities of data (e.g., molecules and proteins) are handled, achieving superior performance in various applications and augmenting the scientific discovery process. Nevertheless, previous surveys on scientific LLMs often concentrate on one or two fields or a single modality. In this paper, we aim to provide a more holistic view of the research landscape by unveiling cross-field and cross-modal connections between scientific LLMs regarding their architectures and pre-training techniques. To this end, we comprehensively survey over 260 scientific LLMs, discuss their commonalities and differences, as well as summarize pre-training datasets and evaluation tasks for each field and modality. Moreover, we investigate how LLMs have been deployed to benefit scientific discovery. Resources related to this survey are available at https://github.com/yuzhimanhua/Awesome-Scientific-Language-Models.