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We introduce generative adversarial models in which the discriminator is replaced by a calibrated (non-differentiable) classifier repeatedly enhanced by domain relevant features. The role of the classifier is to prove that the actual and…

Machine Learning · Computer Science 2019-10-08 Shahar Harel , Meir Maor , Amir Ronen

Generative models in drug discovery have recently gained attention as efficient alternatives to brute-force virtual screening. However, most existing models do not account for synthesizability, limiting their practical use in real-world…

Biomolecules · Quantitative Biology 2025-03-07 Seonghwan Seo , Minsu Kim , Tony Shen , Martin Ester , Jinkyoo Park , Sungsoo Ahn , Woo Youn Kim

We introduce the GANformer2 model, an iterative object-oriented transformer, explored for the task of generative modeling. The network incorporates strong and explicit structural priors, to reflect the compositional nature of visual scenes,…

Computer Vision and Pattern Recognition · Computer Science 2021-11-18 Drew A. Hudson , C. Lawrence Zitnick

The constrained nature of synthesizable chemical space poses a significant challenge for sampling molecules that are both synthetically accessible and possess desired properties. In this work, we present PrexSyn, an efficient and…

Machine Learning · Computer Science 2025-12-02 Shitong Luo , Connor W. Coley

Predicting which hypothetical inorganic crystals can be experimentally realized remains a central challenge in accelerating materials discovery. SyntheFormer is a positive-unlabeled framework that learns synthesizability directly from…

Materials Science · Physics 2025-10-23 Danial Ebrahimzadeh , Sarah Sharif , Yaser Mike Banad

Many generative applications, such as synthesis-based 3D molecular design, involve constructing compositional objects with continuous features. Here, we introduce Compositional Generative Flows (CGFlow), a novel framework that extends flow…

Machine Learning · Computer Science 2025-07-16 Tony Shen , Seonghwan Seo , Ross Irwin , Kieran Didi , Simon Olsson , Woo Youn Kim , Martin Ester

The application of generative models for experimental drug discovery campaigns is severely limited by the difficulty of designing molecules de novo that can be synthesized in practice. Previous works have leveraged Generative Flow Networks…

Foundation models for single-cell RNA sequencing (scRNA-seq) have shown promising capabilities in capturing gene expression patterns. However, current approaches face critical limitations: they ignore biological prior knowledge encoded in…

Machine Learning · Computer Science 2025-03-04 Mufan Qiu , Xinyu Hu , Fengwei Zhan , Sukwon Yun , Jie Peng , Ruichen Zhang , Bhavya Kailkhura , Jiekun Yang , Tianlong Chen

The design of molecules and materials with tailored properties is challenging, as candidate molecules must satisfy multiple competing requirements that are often difficult to measure or compute. While molecular structures, produced through…

Chemical Physics · Physics 2023-02-07 Julia Westermayr , Joe Gilkes , Rhyan Barrett , Reinhard J. Maurer

Materials discovery is fundamental to advance next-generation technologies as well as for sustainable and circular economy. Beyond computational screening, generative models are efficient at finding materials with desired properties, via…

Although machine learning has been successfully used to propose novel molecules that satisfy desired properties, it is still challenging to explore a large chemical space efficiently. In this paper, we present a conditional molecular design…

Machine Learning · Computer Science 2019-04-02 Seokho Kang , Kyunghyun Cho

Recent advancements in generative models have unlocked the capabilities to render photo-realistic data in a controllable fashion. Trained on the real data, these generative models are capable of producing realistic samples with minimal to…

Computer Vision and Pattern Recognition · Computer Science 2024-06-13 Abhay Rawat , Shubham Dokania , Astitva Srivastava , Shuaib Ahmed , Haiwen Feng , Rahul Tallamraju

The recent surge in Generative Artificial Intelligence (AI) has introduced exciting possibilities for computational chemistry. Generative AI methods have made significant progress in sampling molecular structures across chemical species,…

Statistical Mechanics · Physics 2024-09-06 Pratyush Tiwary , Lukas Herron , Richard John , Suemin Lee , Disha Sanwal , Ruiyu Wang

We present a novel way to predict molecular conformers through a simple formulation that sidesteps many of the heuristics of prior works and achieves state of the art results by using the advantages of scale. By training a diffusion…

Chemical Physics · Physics 2024-05-13 Yuyang Wang , Ahmed A. Elhag , Navdeep Jaitly , Joshua M. Susskind , Miguel Angel Bautista

Machine learning is revolutionizing chemistry. Beyond the value of predictive models accelerating virtual screening, generative AI aims at enabling inverse design, reversing the compound-to-property prediction paradigm into…

Molecular design and synthesis planning are two critical steps in the process of molecular discovery that we propose to formulate as a single shared task of conditional synthetic pathway generation. We report an amortized approach to…

Machine Learning · Computer Science 2022-03-15 Wenhao Gao , Rocío Mercado , Connor W. Coley

This paper presents a pilot study that explores the application of active learning, traditionally studied in the context of discriminative models, to generative models. We specifically focus on image synthesis personalization tasks. The…

Computer Vision and Pattern Recognition · Computer Science 2024-04-17 Xulu Zhang , Wengyu Zhang , Xiao-Yong Wei , Jinlin Wu , Zhaoxiang Zhang , Zhen Lei , Qing Li

Although many AI applications of interest require specialized multi-modal models, relevant data to train such models is inherently scarce or inaccessible. Filling these gaps with human annotators is prohibitively expensive, error-prone, and…

Artificial Intelligence · Computer Science 2026-04-01 Tim R. Davidson , Benoit Seguin , Enrico Bacis , Cesar Ilharco , Hamza Harkous

The discovery of new energetic materials remains a pressing challenge hindered by limited availability of high-quality data. To address this, we have developed generative molecular language models that have been pretrained on extensive…

The task of deducing three-dimensional molecular configurations from their two-dimensional graph representations holds paramount importance in the fields of computational chemistry and pharmaceutical development. The rapid advancement of…

Biomolecules · Quantitative Biology 2025-01-09 Bobin Yang , Jie Deng , Zhenghan Chen , Ruoxue Wu