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Retrosynthesis planning remains a central challenge in molecular discovery due to the vast and complex chemical reaction space. While traditional template-based methods offer tractability, they suffer from poor scalability and limited…

Machine Learning · Computer Science 2025-07-31 Nguyen Xuan-Vu , Daniel P Armstrong , Zlatko Jončev , Philippe Schwaller

Identification of drug-target interactions (DTIs) plays a key role in drug discovery. The high cost and labor-intensive nature of in vitro and in vivo experiments have highlighted the importance of in silico-based DTI prediction approaches.…

Quantitative Methods · Quantitative Biology 2019-09-11 Ingoo Lee , Jongsoo Keum , Hojung Nam

While machine learning has transformed polymer design by enabling rapid property prediction and candidate generation, translating these designs into experimentally realizable materials remains a critical challenge. Traditionally, the…

Soft Condensed Matter · Physics 2025-12-08 Sakshi Agarwal , Wei Xiong , Rampi Ramprasad

Recent works have proven the effectiveness of k-nearest-neighbor machine translation(a.k.a kNN-MT) approaches to produce remarkable improvement in cross-domain translations. However, these models suffer from heavy retrieve overhead on the…

Computation and Language · Computer Science 2025-01-07 Xiangyu Shi , Yunlong Liang , Jinan Xu , Yufeng Chen

The identification of synthetic routes that end with a desired product has been an inherently time-consuming process that is largely dependent on expert knowledge regarding a limited fraction of the entire reaction space. At present,…

Machine Learning · Statistics 2020-12-17 Zhongliang Guo , Stephen Wu , Mitsuru Ohno , Ryo Yoshida

Pre-trained models are widely used in fine-tuning downstream tasks with linear classifiers optimized by the cross-entropy loss, which might face robustness and stability problems. These problems can be improved by learning representations…

Computation and Language · Computer Science 2021-10-07 Linyang Li , Demin Song , Ruotian Ma , Xipeng Qiu , Xuanjing Huang

Generating new molecules with specified chemical and biological properties via generative models has emerged as a promising direction for drug discovery. However, existing methods require extensive training/fine-tuning with a large dataset,…

Quantitative Methods · Quantitative Biology 2023-04-25 Zichao Wang , Weili Nie , Zhuoran Qiao , Chaowei Xiao , Richard Baraniuk , Anima Anandkumar

Retrosynthesis, which aims to identify viable synthetic pathways for target molecules by decomposing them into simpler precursors, is often treated as a search problem. However, its complexity arises from multi-branched tree-structured…

Artificial Intelligence · Computer Science 2025-11-25 Chengyang Tian , Yuhang Chang , Yangpeng Zhang , Yang Liu

Retrosynthesis analysis is pivotal yet challenging in drug discovery and organic chemistry. Despite the proliferation of computational tools over the past decade, AI-based systems often fall short in generalizing across diverse reaction…

Machine Learning · Computer Science 2024-08-21 Yifei Yang , Runhan Shi , Zuchao Li , Shu Jiang , Bao-Liang Lu , Yang Yang , Hai Zhao

Predictive materials synthesis is the primary bottleneck in realizing new functional and quantum materials. Strategies for synthesis of promising materials are currently identified by time-consuming trial and error approaches and there are…

We introduce MHNpath, a machine learning-driven retrosynthetic tool designed for computer-aided synthesis planning. Leveraging modern Hopfield networks and novel comparative metrics, MHNpath efficiently prioritizes reaction templates,…

Computational Engineering, Finance, and Science · Computer Science 2025-12-18 Shivesh Prakash , Nandan Patel , Hans-Arno Jacobsen , Viki Kumar Prasad

We present an extension of our Molecular Transformer architecture combined with a hyper-graph exploration strategy for automatic retrosynthesis route planning without human intervention. The single-step retrosynthetic model sets a new state…

In both mobile and web applications, speeding up user interface response times can often lead to significant improvements in user engagement. A common technique to improve responsiveness is to precompute data ahead of time for specific…

Machine Learning · Computer Science 2020-03-04 Hanson Wang , Zehui Wang , Yuanyuan Ma

Retinal image matching plays a crucial role in monitoring disease progression and treatment response. However, datasets with matched keypoints between temporally separated pairs of images are not available in abundance to train…

Computer Vision and Pattern Recognition · Computer Science 2023-07-24 Sahar Almahfouz Nasser , Nihar Gupte , Amit Sethi

Chemical synthesis remains a critical bottleneck in the discovery and manufacture of functional small molecules. AI-based synthesis planning models could be a potential remedy to find effective syntheses, and have made progress in recent…

Retrieval augmented methods have shown promising results in various classification tasks. However, existing methods focus on retrieving extra context to enrich the input, which is noise sensitive and non-expandable. In this paper, following…

Computation and Language · Computer Science 2023-04-12 Xinnian Liang , Shuangzhi Wu , Hui Huang , Jiaqi Bai , Chao Bian , Zhoujun Li

Retrieval-augmented language models (LMs) have received much attention recently. However, typically the retriever is not trained jointly as a native component of the LM, but added post-hoc to an already-pretrained LM, which limits the…

Computation and Language · Computer Science 2024-07-23 Ohad Rubin , Jonathan Berant

Identification and verification of molecular properties such as side effects is one of the most important and time-consuming steps in the process of molecule synthesis. For example, failure to identify side effects before submission to…

Quantitative Methods · Quantitative Biology 2024-04-12 Collin Beaudoin , Koustubh Phalak , Swaroop Ghosh

Retrosynthesis planning is a fundamental challenge in chemistry which aims at designing reaction pathways from commercially available starting materials to a target molecule. Each step in multi-step retrosynthesis planning requires accurate…

Quantitative Methods · Quantitative Biology 2024-03-27 Ilia Igashov , Arne Schneuing , Marwin Segler , Michael Bronstein , Bruno Correia

The paradigm of automated waste classification has recently seen a shift in the domain of interest from conventional image processing techniques to powerful computer vision algorithms known as convolutional neural networks (CNN).…

Computer Vision and Pattern Recognition · Computer Science 2021-10-25 Mazin Abdulmahmood , Ryan Grammenos