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Biomedical research increasingly relies on integrating diverse data modalities, including gene expression profiles, medical images, and clinical metadata. While medical images and clinical metadata are routinely collected in clinical…

Artificial Intelligence · Computer Science 2026-01-23 Francesca Pia Panaccione , Carlo Sgaravatti , Pietro Pinoli

Recently, increasing works have proposed to drive evolutionary algorithms using machine learning models. Usually, the performance of such model based evolutionary algorithms is highly dependent on the training qualities of the adopted…

Neural and Evolutionary Computing · Computer Science 2020-05-12 Cheng He , Shihua Huang , Ran Cheng , Kay Chen Tan , Yaochu Jin

Superomniphobic textures are at the frontier of surface design for vast arrays of applications. Despite recent significant advances in fabrication methods for reentrant and doubly reentrant microstructures, design optimisation remains a…

Soft Condensed Matter · Physics 2019-10-16 Jack Panter , Yonas Gizaw , Halim Kusumaatmaja

Designing molecules that must satisfy multiple, often conflicting objectives is a central challenge in molecular discovery. The enormous size of chemical space and the cost of high-fidelity simulations have driven the development of machine…

Machine Learning · Statistics 2025-12-22 Madhav R. Muthyala , Farshud Sorourifar , Tianhong Tan , You Peng , Joel A. Paulson

Antibodies, crucial for immune defense, primarily rely on complementarity-determining regions (CDRs) to bind and neutralize antigens, such as viruses. The design of these CDRs determines the antibody's affinity and specificity towards its…

Quantitative Methods · Quantitative Biology 2024-09-10 Paulina Kulytė , Francisco Vargas , Simon Valentin Mathis , Yu Guang Wang , José Miguel Hernández-Lobato , Pietro Liò

In recent years the scientific community has devoted much effort in the development of deep learning models for the generation of new molecules with desirable properties (i.e. drugs). This has produced many proposals in literature. However,…

Machine Learning · Computer Science 2020-08-24 Davide Rigoni , Nicolò Navarin , Alessandro Sperduti

A challenge in designing self-assembling building blocks is to ensure the target state is both thermodynamically stable and kinetically accessible. These two objectives are known to be typically in competition, but it is not known how to…

Soft Condensed Matter · Physics 2021-07-01 Anthony Trubiano , Miranda Holmes-Cerfon

Navigating the vast chemical space of molecular structures to design novel drug molecules with desired target properties remains a central challenge in drug discovery. Recent advances in generative models offer promising solutions. This…

Application of realism enhancement methods, particularly in real-time and resource-constrained settings, has been frustrated by the expense of existing methods. These achieve high quality results only at the cost of long runtimes and high…

Graphics · Computer Science 2023-06-08 Arturo Salmi , Szabolcs Cséfalvay , James Imber

The long-term efficacy of targeted therapeutics for cancer treatment can be significantly limited by the type of therapy and development of drug resistance, inter alia. Experimental studies indicate that the factors enhancing acquisition of…

Tissues and Organs · Quantitative Biology 2021-02-16 Joseph Malinzi , Kevin Bosire Basita , Sara Padidar , Henry A. Adeola

Machine learning in drug discovery has been focused on virtual screening of molecular libraries using discriminative models. Generative models are an entirely different approach that learn to represent and optimize molecules in a continuous…

Quantitative Methods · Quantitative Biology 2020-11-17 Matthew Ragoza , Tomohide Masuda , David Ryan Koes

We propose and demonstrate the use of a model-assisted generative adversarial network (GAN) to produce fake images that accurately match true images through the variation of the parameters of the model that describes the features of the…

Computer Vision and Pattern Recognition · Computer Science 2020-03-13 Saúl Alonso-Monsalve , Leigh H. Whitehead

The field of antibody-based therapeutics has grown significantly in recent years, with targeted antibodies emerging as a potentially effective approach to personalized therapies. Such therapies could be particularly beneficial for complex,…

The development of reliable methods for restoring susceptibility after antibiotic resistance arises has proven elusive. A greater understanding of the relationship between antibiotic administration and the evolution of resistance is key to…

Populations and Evolution · Quantitative Biology 2014-06-09 Portia M. Mira , Kristina Crona , Devin Greene , Juan C. Meza , Bernd Sturmfels , Miriam Barlow

Materials discovery is decisive for tackling urgent challenges related to energy, the environment, health care and many others. In chemistry, conventional methodologies for innovation usually rely on expensive and incremental strategies to…

Machine Learning · Computer Science 2020-06-09 Daniel Schwalbe-Koda , Rafael Gómez-Bombarelli

Designing new chemical compounds with desired pharmaceutical properties is a challenging task and takes years of development and testing. Still, a majority of new drugs fail to prove efficient. Recent success of deep generative modeling…

Machine Learning · Computer Science 2021-09-15 Karina Zadorozhny , Lada Nuzhna

Artificial intelligence (AI)-driven methods can vastly improve the historically costly drug design process, with various generative models already in widespread use. Generative models for de novo drug design, in particular, focus on the…

Biomolecules · Quantitative Biology 2024-06-27 Xiangru Tang , Howard Dai , Elizabeth Knight , Fang Wu , Yunyang Li , Tianxiao Li , Mark Gerstein

To generate drug molecules of desired properties with computational methods is the holy grail in pharmaceutical research. Here we describe an AI strategy, retro drug design, or RDD, to generate novel small molecule drugs from scratch to…

Biomolecules · Quantitative Biology 2021-05-12 Yuhong Wang , Sam Michael , Ruili Huang , Jinghua Zhao , Katlin Recabo , Danielle Bougie , Qiang Shu , Paul Shinn , Hongmao Sun

In the past decade, Artificial Intelligence driven drug design and discovery has been a hot research topic, where an important branch is molecule generation by generative models, from GAN-based models and VAE-based models to the latest…

Biomolecules · Quantitative Biology 2023-10-10 Siyuan Guo , Jihong Guan , Shuigeng Zhou

Computer aided drug design is a promising approach to reduce the tremendous costs, i.e. time and resources, for developing new medicinal drugs. It finds application in aiding the traversal of the vast chemical space of potentially useful…

Neural and Evolutionary Computing · Computer Science 2024-05-02 Tomoya Hömberg , Sanaz Mostaghim , Satoru Hiwa , Tomoyuki Hiroyasu