English
Related papers

Related papers: SBML2Modelica: integrating biochemical models with…

200 papers

Large Language Models are versatile, general-purpose tools with a wide range of applications. Recently, the advent of "reasoning models" has led to substantial improvements in their abilities in advanced problem-solving domains such as…

Machine Learning · Computer Science 2025-07-14 Nicholas T. Runcie , Charlotte M. Deane , Fergus Imrie

Large language models (LLMs) are beginning to reshape how chemists plan and run reactions in organic synthesis. Trained on millions of reported transformations, these text-based models can propose synthetic routes, forecast reaction…

Artificial Intelligence · Computer Science 2025-08-08 Kartar Kumar Lohana Tharwani , Rajesh Kumar , Sumita , Numan Ahmed , Yong Tang

Language models (LMs) have demonstrated expert-level reasoning and recall abilities in medicine. However, computational costs and privacy concerns are mounting barriers to wide-scale implementation. To address these significant limitations,…

Computation and Language · Computer Science 2025-12-01 Krithik Vishwanath , Jaden Stryker , Anton Alyakin , Daniel Alexander Alber , Eric Karl Oermann

Data science plays a critical role in biomedical research, but it requires professionals with expertise in coding and medical data analysis. Large language models (LLMs) have shown great potential in supporting medical tasks and performing…

Artificial Intelligence · Computer Science 2025-04-10 Zifeng Wang , Benjamin Danek , Ziwei Yang , Zheng Chen , Jimeng Sun

Open-source, multilingual medical large language models (LLMs) have the potential to serve linguistically diverse populations across different regions. Adapting generic LLMs for healthcare often requires continual pretraining, but this…

Computation and Language · Computer Science 2024-09-10 Meng Zhou , Surajsinh Parmar , Anubhav Bhatti

Large language models (LLMs) are a class of artificial intelligence models based on deep learning, which have great performance in various tasks, especially in natural language processing (NLP). Large language models typically consist of…

Quantitative Methods · Quantitative Biology 2025-02-04 Jiajia Liu , Mengyuan Yang , Yankai Yu , Haixia Xu , Tiangang Wang , Kang Li , Xiaobo Zhou

The integration of Large Language Models (LLMs) into the drug discovery and development field marks a significant paradigm shift, offering novel methodologies for understanding disease mechanisms, facilitating drug discovery, and optimizing…

Quantitative Methods · Quantitative Biology 2024-09-10 Yizhen Zheng , Huan Yee Koh , Maddie Yang , Li Li , Lauren T. May , Geoffrey I. Webb , Shirui Pan , George Church

The rapid growth of scientific software has created practical barriers for bioinformatics research. Although powerful statistical, artificial intelligence (AI)-based methods are now widely available, their effective use is often hindered by…

Software Engineering · Computer Science 2026-04-24 Simon Süwer , Zoe Chervontseva , Kester Bagemihl , Jan Baumbach , Olga Tsoy , Andreas Maier

Any traditional engineering field has metrics to rigorously assess the quality of their products. Engineers know that the output must satisfy the requirements, must comply with the production and market rules, and must be competitive.…

This review explores the potential of foundation models to advance laboratory automation in the materials and chemical sciences. It emphasizes the dual roles of these models: cognitive functions for experimental planning and data analysis,…

Foundation models update slowly due to resource-intensive training, whereas domain-specific models evolve rapidly between releases. Model merging seeks to combine multiple expert models into a single, more capable model, reducing storage…

Artificial Intelligence · Computer Science 2026-03-04 Yongxian Wei , Runxi Cheng , Weike Jin , Enneng Yang , Li Shen , Lu Hou , Sinan Du , Chun Yuan , Xiaochun Cao , Dacheng Tao

Given the power of large language and large vision models, it is of profound and fundamental interest to ask if a foundational model based on data and parameter scaling laws and pre-training strategies is possible for learned simulations of…

The biomedical field relies heavily on concept linking in various areas such as literature mining, graph alignment, information retrieval, question-answering, data, and knowledge integration. Although large language models (LLMs) have made…

Computation and Language · Computer Science 2023-07-04 Qinyong Wang , Zhenxiang Gao , Rong Xu

Machine learning (ML) applications in medical artificial intelligence (AI) systems have shifted from traditional and statistical methods to increasing application of deep learning models. This survey navigates the current landscape of…

Machine Learning · Computer Science 2024-01-23 Elisa Warner , Joonsang Lee , William Hsu , Tanveer Syeda-Mahmood , Charles Kahn , Olivier Gevaert , Arvind Rao

Spoken Dialogue Models (SDMs) have recently attracted significant attention for their ability to generate voice responses directly to users' spoken queries. Despite their increasing popularity, there exists a gap in research focused on…

Computation and Language · Computer Science 2025-10-07 Chengqian Ma , Wei Tao , Yiwen Guo

Model merging aims to combine multiple task-specific expert models into a single model without joint retraining, offering a practical alternative to multi-task learning when data access or computational budget is limited. Existing methods,…

Machine Learning · Computer Science 2026-05-14 Kaiyang Li , Shaobo Han , Qing Su , Shihao Ji

There is growing interest in leveraging large language models (LLMs) for text-to-model translation and optimization tasks. This paper aims to advance this line of research by introducing \textsc{Text2Model} and \textsc{Text2Zinc}.…

Artificial Intelligence · Computer Science 2026-05-28 Serdar Kadioglu , Karthik Uppuluri , Akash Singirikonda

Large Language Models (LLMs) are frequently used for multi-faceted language generation and evaluation tasks that involve satisfying intricate user constraints or taking into account multiple aspects and criteria. However, their performance…

Computation and Language · Computer Science 2024-06-10 Swarnadeep Saha , Omer Levy , Asli Celikyilmaz , Mohit Bansal , Jason Weston , Xian Li

The article introduces a concept for a time- and cost-effective methodological framework leveraging machine learning (ML) models for both early-stage drug development and clinical trial support. The rationale for this approach is the…

Quantitative Methods · Quantitative Biology 2025-12-04 Mariya L. Ivanova , Michael Nicholls , Nicola Russo , Gueorgui Mihaylov , Konstantin Nikolic

Large language models (LLMs) need to serve everyone, including a global majority of non-English speakers. However, most LLMs today, and open LLMs in particular, are often intended for use in just English (e.g. Llama2, Mistral) or a small…

Computation and Language · Computer Science 2024-07-19 Carolin Holtermann , Paul Röttger , Timm Dill , Anne Lauscher