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Related papers: KnowMol: Advancing Molecular Large Language Models…

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Despite their success at many natural language processing (NLP) tasks, large language models still struggle to effectively leverage knowledge for knowledge-intensive tasks, manifesting limitations such as generating incomplete, non-factual,…

Computation and Language · Computer Science 2024-10-03 Yougang Lyu , Lingyong Yan , Shuaiqiang Wang , Haibo Shi , Dawei Yin , Pengjie Ren , Zhumin Chen , Maarten de Rijke , Zhaochun Ren

With the emergence of diffusion models as a frontline generative model, many researchers have proposed molecule generation techniques with conditional diffusion models. However, the unavoidable discreteness of a molecule makes it difficult…

Machine Learning · Computer Science 2025-06-05 Jinho Chang , Jong Chul Ye

Large Language Models (LLMs) have garnered significant attention due to their remarkable ability to process information across various languages. Despite their capabilities, they exhibit inconsistencies in handling identical queries in…

Computation and Language · Computer Science 2024-06-24 Yue Huang , Chenrui Fan , Yuan Li , Siyuan Wu , Tianyi Zhou , Xiangliang Zhang , Lichao Sun

Molecular generative models, often employing GPT-style language modeling on molecular string representations, have shown promising capabilities when scaled to large datasets and model sizes. However, it remains unclear and subject to debate…

Machine Learning · Computer Science 2026-02-02 Dong Xu , Qihua Pan , Sisi Yuan , Jianqiang Li , Zexuan Zhu , Junkai Ji

Multimodal deep learning systems which employ multiple modalities like text, image, audio, video, etc., are showing better performance in comparison with individual modalities (i.e., unimodal) systems. Multimodal machine learning involves…

Machine Learning · Computer Science 2022-01-19 Anil Rahate , Rahee Walambe , Sheela Ramanna , Ketan Kotecha

Significant interests have recently risen in leveraging sequence-based large language models (LLMs) for drug design. However, most current applications of LLMs in drug discovery lack the ability to comprehend three-dimensional (3D)…

Small molecules are essential to drug discovery, and graph-language models hold promise for learning molecular properties and functions from text. However, existing molecule-text datasets are limited in scale and informativeness,…

Biomolecules · Quantitative Biology 2025-06-03 Yihan Zhu , Gang Liu , Eric Inae , Meng Jiang

Large Language Models (LLMs) have significantly transformed our daily life and established a new paradigm in natural language processing (NLP). However, the predominant pretraining of LLMs on extensive web-based texts remains insufficient…

Chemical Physics · Physics 2024-12-31 Yang Han , Ziping Wan , Lu Chen , Kai Yu , Xin Chen

Automated knowledge discovery from trending chemical literature is essential for more efficient biomedical research. How to extract detailed knowledge about chemical reactions from the core chemistry literature is a new emerging challenge…

Computation and Language · Computer Science 2021-08-31 Chenkai Sun , Weijiang Li , Jinfeng Xiao , Nikolaus Nova Parulian , ChengXiang Zhai , Heng Ji

In an era defined by the explosive growth of data and rapid technological advancements, Multimodal Large Language Models (MLLMs) stand at the forefront of artificial intelligence (AI) systems. Designed to seamlessly integrate diverse data…

Connecting text and visual modalities plays an essential role in generative intelligence. For this reason, inspired by the success of large language models, significant research efforts are being devoted to the development of Multimodal…

Computer Vision and Pattern Recognition · Computer Science 2024-06-07 Davide Caffagni , Federico Cocchi , Luca Barsellotti , Nicholas Moratelli , Sara Sarto , Lorenzo Baraldi , Lorenzo Baraldi , Marcella Cornia , Rita Cucchiara

Large Language Models (LLMs) have demonstrated exceptional performance in biochemical tasks, especially the molecule caption translation task, which aims to bridge the gap between molecules and natural language texts. However, previous…

Computation and Language · Computer Science 2025-04-08 Jiatong Li , Wei Liu , Zhihao Ding , Wenqi Fan , Yuqiang Li , Qing Li

Background: Identification of the interactions and regulatory relations between biomolecules play pivotal roles in understanding complex biological systems and the mechanisms underlying diverse biological functions. However, the collection…

Computation and Language · Computer Science 2025-04-24 Gilchan Park , Byung-Jun Yoon , Xihaier Luo , Vanessa López-Marrero , Shinjae Yoo , Shantenu Jha

A molecule's properties are fundamentally determined by its composition and structure encoded in its molecular graph. Thus, reasoning about molecular properties requires the ability to parse and understand the molecular graph. Large…

Machine Learning · Computer Science 2026-01-22 Christoph Bartmann , Johannes Schimunek , Mykyta Ielanskyi , Philipp Seidl , Günter Klambauer , Sohvi Luukkonen

Large-scale pre-training methodologies for chemical language models represent a breakthrough in cheminformatics. These methods excel in tasks such as property prediction and molecule generation by learning contextualized representations of…

Machine Learning · Computer Science 2025-07-18 Eduardo Soares , Victor Shirasuna , Emilio Vital Brazil , Renato Cerqueira , Dmitry Zubarev , Kristin Schmidt

The rapid development of Large Language Models (LLMs) has catalyzed significant advancements in video understanding technologies. This survey provides a comprehensive analysis of benchmarks and evaluation methodologies specifically designed…

Computer Vision and Pattern Recognition · Computer Science 2025-05-08 Yogesh Kumar

This study presents a systematic approach to identifying and characterizing student misconceptions in online learning environments through a novel combination of quantitative performance analysis and large language model (LLM) assessment.…

Computation and Language · Computer Science 2026-05-04 Michael J. Parker , Maria G. Zavala-Cerna

Recently, the impressive performance of large language models (LLMs) on a wide range of tasks has attracted an increasing number of attempts to apply LLMs in drug discovery. However, molecule optimization, a critical task in the drug…

Quantitative Methods · Quantitative Biology 2024-01-22 Geyan Ye , Xibao Cai , Houtim Lai , Xing Wang , Junhong Huang , Longyue Wang , Wei Liu , Xiangxiang Zeng

Multimodal language analysis is a rapidly evolving field that leverages multiple modalities to enhance the understanding of high-level semantics underlying human conversational utterances. Despite its significance, little research has…

Computation and Language · Computer Science 2025-04-25 Hanlei Zhang , Zhuohang Li , Yeshuang Zhu , Hua Xu , Peiwu Wang , Haige Zhu , Jie Zhou , Jinchao Zhang

The unprecedented performance of large language models (LLMs) necessitates improvements in evaluations. Rather than merely exploring the breadth of LLM abilities, we believe meticulous and thoughtful designs are essential to thorough,…