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Artificial intelligence (AI) has been widely applied in drug discovery with a major task as molecular property prediction. Despite booming techniques in molecular representation learning, key elements underlying molecular property…

Quantitative Methods · Quantitative Biology 2023-09-06 Jianyuan Deng , Zhibo Yang , Hehe Wang , Iwao Ojima , Dimitris Samaras , Fusheng Wang

Two-dimensional (2D) materials and heterostructures exhibit unique physical properties, necessitating efficient and accurate characterization methods. Leveraging advancements in artificial intelligence, we introduce a deep learning-based…

Machine Learning · Computer Science 2025-03-04 Junqi He , Yujie Zhang , Jialu Wang , Tao Wang , Pan Zhang , Chengjie Cai , Jinxing Yang , Xiao Lin , Xiaohui Yang

While visual and auditory information conveyed by wavelength of light and frequency of sound have been decoded, predicting olfactory information encoded by the combination of odorants remains challenging due to the unknown and potentially…

Machine Learning · Computer Science 2023-05-23 Mengji Zhang , Yusuke Hiki , Akira Funahashi , Tetsuya J. Kobayashi

Machine learning (ML) offers considerable promise for the design of new molecules and materials. In real-world applications, the design problem is often domain-specific, and suffers from insufficient data, particularly labeled data, for ML…

Chemical Physics · Physics 2025-02-04 Ming Han , Ge Sun , Juan J. de Pablo

Resorbable magnesium (Mg) alloys are promising candidates for temporary medical devices due to their biodegradability and favorable mechanical properties. To accelerate the design of diluted Mg alloys for implants, we developed a…

Materials Science · Physics 2026-04-23 Vickey Nandal , Vít Beneš , Pavel Baláž , Jiří Ryjáček , Karel Tesař

The absorption, distribution, metabolism, excretion, and toxicity (ADMET) properties are important in drug discovery as they define efficacy and safety. In this work, we applied an ensemble of features, including fingerprints and…

Biomolecules · Quantitative Biology 2022-09-20 Hao Tian , Rajas Ketkar , Peng Tao

Pre-training by numerous image data has become de-facto for robust 2D representations. In contrast, due to the expensive data acquisition and annotation, a paucity of large-scale 3D datasets severely hinders the learning for high-quality 3D…

Computer Vision and Pattern Recognition · Computer Science 2022-12-14 Renrui Zhang , Liuhui Wang , Yu Qiao , Peng Gao , Hongsheng Li

Molecular optimization, aimed at improving binding affinity or other molecular properties, is a crucial task in drug discovery that often relies on the expertise of medicinal chemists. Recently, deep learning-based 3D generative models…

Machine Learning · Computer Science 2025-05-01 Anjie Qiao , Junjie Xie , Weifeng Huang , Hao Zhang , Jiahua Rao , Shuangjia Zheng , Yuedong Yang , Zhen Wang , Guo-Bo Li , Jinping Lei

Deep generative models have achieved tremendous success in designing novel drug molecules in recent years. A new thread of works have shown the great potential in advancing the specificity and success rate of in silico drug design by…

Machine Learning · Computer Science 2025-07-14 Xingang Peng , Shitong Luo , Jiaqi Guan , Qi Xie , Jian Peng , Jianzhu Ma

Accurate molecular property prediction (MPP) is a critical step in modern drug development. However, the scarcity of experimental validation data poses a significant challenge to AI-driven research paradigms. Under few-shot learning…

Machine Learning · Computer Science 2025-05-20 Yifan Dai , Xuanbai Ren , Tengfei Ma , Qipeng Yan , Yiping Liu , Yuansheng Liu , Xiangxiang Zeng

We apply a Transformer architecture, specifically BERT, to learn flexible and high quality molecular representations for drug discovery problems. We study the impact of using different combinations of self-supervised tasks for pre-training,…

Machine Learning · Computer Science 2020-11-30 Benedek Fabian , Thomas Edlich , Héléna Gaspar , Marwin Segler , Joshua Meyers , Marco Fiscato , Mohamed Ahmed

We present ChemXploreML, a modular desktop application designed for machine learning-based molecular property prediction. The framework's flexible architecture allows integration of any molecular embedding technique with modern machine…

Chemical Physics · Physics 2025-05-14 Aravindh Nivas Marimuthu , Brett A. McGuire

Chemical design of SiO2-based glasses with high elastic moduli and low weight is of great interest. However, it is difficult to find a universal expression to predict the elastic moduli according to the glass composition before synthesis…

This paper proposes a novel deep learning framework for multi-modal motion prediction. The framework consists of three parts: recurrent neural networks to process the target agent's motion process, convolutional neural networks to process…

Robotics · Computer Science 2022-07-05 Zhiyu Huang , Xiaoyu Mo , Chen Lv

Scaling up deep learning models has been proven effective to improve intelligence of machine learning (ML) models, especially for industry recommendation models and large language models. The co-design of large distributed ML systems and…

Machine Learning · Computer Science 2024-09-24 Wei Wen , Quanyu Zhu , Weiwei Chu , Wen-Yen Chen , Jiyan Yang

An AI-ML-powered quality engineering approach uses AI-ML to enhance software quality assessments by predicting defects. Existing ML models struggle with noisy data types, imbalances, pattern recognition, feature extraction, and…

Software Engineering · Computer Science 2025-10-14 Seshu Barma , Mohanakrishnan Hariharan , Satish Arvapalli

Accurate prediction of CB2 receptor ligand activity is pivotal for advancing drug discovery targeting this receptor, which is implicated in inflammation, pain management, and neurodegenerative conditions. Although conventional machine…

Machine Learning · Computer Science 2025-02-19 Jiacheng Xie , Yingrui Ji , Linghuan Zeng , Xi Xiao , Gaofei Chen , Lijing Zhu , Joyanta Jyoti Mondal , Jiansheng Chen

Currently, data and model size dominate the narrative in the training of super-large, powerful models. However, there has been a lack of exploration on the effect of other attributes of the training dataset on model performance. We…

Machine Learning · Computer Science 2025-01-22 Kavita Selva , Satita Vittayaareekul , Brando Miranda

Masked speech modeling (MSM) methods such as wav2vec2 or w2v-BERT learn representations over speech frames which are randomly masked within an utterance. While these methods improve performance of Automatic Speech Recognition (ASR) systems,…

An accurate binding affinity prediction between T-cell receptors and epitopes contributes decisively to develop successful immunotherapy strategies. Some state-of-the-art computational methods implement deep learning techniques by…

Machine Learning · Computer Science 2024-01-18 Etienne Goffinet , Raghvendra Mall , Ankita Singh , Rahul Kaushik , Filippo Castiglione