English
Related papers

Related papers: Hierarchical Molecular Language Models (HMLMs)

200 papers

Large Language Models (LLMs) have demonstrated remarkable language understanding and generation capabilities. However, training, deploying, and accessing these models pose notable challenges, including resource-intensive demands, extended…

Computation and Language · Computer Science 2024-01-31 Souvika Sarkar , Mohammad Fakhruddin Babar , Monowar Hasan , Shubhra Kanti Karmaker

Large Language Models (LLMs) show promise in biomedicine but lack true causal understanding, relying instead on correlations. This paper envisions causal LLM agents that integrate multimodal data (text, images, genomics, etc.) and perform…

Artificial Intelligence · Computer Science 2025-05-23 Adib Bazgir , Amir Habibdoust Lafmajani , Yuwen Zhang

In the field of software engineering, applying language models to the token sequence of source code is the state-of-art approach to build a code recommendation system. The syntax tree of source code has hierarchical structures. Ignoring the…

Software Engineering · Computer Science 2022-11-29 Yixiao Yang

Understanding whether large language models (LLMs) and the human brain converge on similar computational principles remains a fundamental and important question in cognitive neuroscience and AI. Do the brain-like patterns observed in LLMs…

Computation and Language · Computer Science 2025-12-03 Yu Lei , Xingyang Ge , Yi Zhang , Yiming Yang , Bolei Ma

With recent Nobel Prizes recognising AI contributions to science, Large Language Models (LLMs) are transforming scientific research by enhancing productivity and reshaping the scientific method. LLMs are now involved in experimental design,…

Molecular Relational Learning (MRL) aims to understand interactions between molecular pairs, playing a critical role in advancing biochemical research. With the recent development of large language models (LLMs), a growing number of studies…

Machine Learning · Computer Science 2025-06-03 Zhuo Chen , Yizhen Zheng , Huan Yee Koh , Hongxin Xiang , Linjiang Chen , Wenjie Du , Yang Wang

Recent developments in Large Language Models (LLMs) have significantly expanded their applications across various domains. However, the effectiveness of LLMs is often constrained when operating individually in complex environments. This…

Artificial Intelligence · Computer Science 2024-05-08 Silvan Ferreira , Ivanovitch Silva , Allan Martins

Large Language Models (LLMs) are transforming artificial intelligence, enabling autonomous agents to perform diverse tasks across various domains. These agents, proficient in human-like text comprehension and generation, have the potential…

Artificial Intelligence · Computer Science 2024-04-10 Saikat Barua

Recently, there has been great success in leveraging pre-trained large language models (LLMs) for time series analysis. The core idea lies in effectively aligning the modality between natural language and time series. However, the…

Machine Learning · Computer Science 2026-03-03 Zongjiang Shang , Dongliang Cui , Binqing Wu , Ling Chen

Messenger RNA (mRNA) plays a crucial role in protein synthesis, with its codon structure directly impacting biological properties. While Language Models (LMs) have shown promise in analyzing biological sequences, existing approaches fail to…

Machine Learning · Computer Science 2025-03-13 Mehdi Yazdani-Jahromi , Mangal Prakash , Tommaso Mansi , Artem Moskalev , Rui Liao

This survey and application guide to multimodal large language models(MLLMs) explores the rapidly developing field of MLLMs, examining their architectures, applications, and impact on AI and Generative Models. Starting with foundational…

Artificial Intelligence · Computer Science 2025-12-02 Chia Xin Liang , Pu Tian , Caitlyn Heqi Yin , Yao Yua , Wei An-Hou , Li Ming , Xinyuan Song , Tianyang Wang , Ziqian Bi , Ming Liu

Language models are increasingly applied to biological sequences like proteins and mRNA, yet their default Euclidean geometry may mismatch the hierarchical structures inherent to biological data. While hyperbolic geometry provides a better…

Machine Learning · Computer Science 2025-11-05 Max van Spengler , Artem Moskalev , Tommaso Mansi , Mangal Prakash , Rui Liao

Recent advancements in artificial intelligence have sparked interest in the parallels between large language models (LLMs) and human neural processing, particularly in language comprehension. While prior research has established…

Computation and Language · Computer Science 2024-12-10 Gavin Mischler , Yinghao Aaron Li , Stephan Bickel , Ashesh D. Mehta , Nima Mesgarani

Natural Language Processing (NLP) is a key technique for developing Medical Artificial Intelligence (AI) systems that leverage Electronic Health Record (EHR) data to build diagnostic and prognostic models. NLP enables the conversion of…

We report a flexible multi-modal mechanics language model, MeLM, applied to solve various nonlinear forward and inverse problems, that can deal with a set of instructions, numbers and microstructure data. The framework is applied to various…

Materials Science · Physics 2023-10-20 Markus J. Buehler

The use of generative artificial intelligence (AI) models is becoming ubiquitous in many fields. Though progress continues to be made, general purpose large language AI models (LLM) show a tendency to deliver creative answers, often called…

Molecular Networks · Quantitative Biology 2025-07-08 Pranta Saha , Joyce Reimer , Brook Byrns , Connor Burbridge , Neeraj Dhar , Jeffrey Chen , Steven Rayan , Gordon Broderick

Large Language Models (LLMs) are being employed widely to automate tasks across the software development life-cycle. It is, however, unclear whether these tasks are performed consistently with respect to the semantics of the artefacts being…

Software Engineering · Computer Science 2026-05-15 Mohammad Reza Mousavi

In the rapidly evolving landscape of genomics, deep learning has emerged as a useful tool for tackling complex computational challenges. This review focuses on the transformative role of Large Language Models (LLMs), which are mostly based…

Large Language Models (LLMs) represent a landmark achievement in Artificial Intelligence (AI), demonstrating unprecedented proficiency in procedural tasks such as text generation, code completion, and conversational coherence. These…

Artificial Intelligence · Computer Science 2025-05-07 Schaun Wheeler , Olivier Jeunen

Huge language models (LMs) have ushered in a new era for AI, serving as a gateway to natural-language-based knowledge tasks. Although an essential element of modern AI, LMs are also inherently limited in a number of ways. We discuss these…