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Prediction of toxicity levels of chemical compounds is an important issue in Quantitative Structure-Activity Relationship (QSAR) modeling. Although toxicity prediction has achieved significant progress in recent times through deep learning,…

Machine Learning · Computer Science 2019-07-22 Abdul Karim , Jaspreet Singh , Avinash Mishra , Abdollah Dehzangi , M. A. Hakim Newton , Abdul Sattar

Toxicity prediction of chemical compounds is a grand challenge. Lately, it achieved significant progress in accuracy but using a huge set of features, implementing a complex blackbox technique such as a deep neural network, and exploiting…

Machine Learning · Computer Science 2019-01-29 Abdul Karim , Avinash Mishra , M A Hakim Newton , Abdul Sattar

Understanding and predicting the progression of neurodegenerative diseases remains a major challenge in medical AI, with significant implications for early diagnosis, disease monitoring, and treatment planning. However, most available…

Computer Vision and Pattern Recognition · Computer Science 2026-04-27 Nivetha Jayakumar , Swakshar Deb , Bahram Jafrasteh , Qingyu Zhao , Miaomiao Zhang

We train a neural network to predict chemical toxicity based on gene expression data. The input to the network is a full expression profile collected either in vitro from cultured cells or in vivo from live animals. The output is a set of…

Genomics · Quantitative Biology 2019-02-04 Peter Eastman , Vijay S. Pande

Biomedical data, particularly in the field of genomics, has characteristics which make it challenging for machine learning applications - it can be sparse, high dimensional and noisy. Biomedical applications also present challenges to model…

As very large studies of complex neuroimaging phenotypes become more common, human quality assessment of MRI-derived data remains one of the last major bottlenecks. Few attempts have so far been made to address this issue with machine…

Based on recent advancements in using machine learning for classical density functional theory for systems with one-dimensional, planar inhomogeneities, we propose a machine learning model for application in two dimensions (2D) akin to…

Statistical Mechanics · Physics 2025-05-22 Felix Glitsch , Jens Weimar , Martin Oettel

Predicting the 3D structure of a macromolecule, such as a protein or an RNA molecule, is ranked top among the most difficult and attractive problems in bioinformatics and computational biology. Its importance comes from the relationship…

Biomolecules · Quantitative Biology 2016-12-14 Zhiyong Wang

To date, the simulation of organ deformations for applications like therapy planning or image-guided interventions is calculated by solving the elastodynamics equations. While efficient solvers have been proposed for fast simulations,…

Quantitative Methods · Quantitative Biology 2018-12-18 Felix Meister , Tiziano Passerini , Viorel Mihalef , Ahmet Tuysuzoglu , Andreas Maier , Tommaso Mansi

This research investigates the use of artificial intelligence and machine learning techniques to predict the toxicity of nanoparticles, a pressing concern due to their pervasive use in various industries and the inherent challenges in…

Chemical Physics · Physics 2024-09-25 Iqra Yousaf

Deep learning fostered a leap ahead in automated skin lesion analysis in the last two years. Those models are expensive to train and difficult to parameterize. Objective: We investigate methodological issues for designing and evaluating…

Computer Vision and Pattern Recognition · Computer Science 2026-04-21 Eduardo Valle , Michel Fornaciali , Afonso Menegola , Julia Tavares , Flávia Vasques Bittencourt , Lin Tzy Li , Sandra Avila

The ability to predict the future trajectory of a patient is a key step toward the development of therapeutics for complex diseases such as Alzheimer's disease (AD). However, most machine learning approaches developed for prediction of…

Monitoring diseases that affect the brain's structural integrity requires automated analysis of magnetic resonance (MR) images, e.g., for the evaluation of volumetric changes. However, many of the evaluation tools are optimized for…

Accurate estimation of production times is critical for effective manufacturing scheduling, yet traditional methods relying on expert analysis or historical data often fall short in dynamic or customized production environments. This paper…

Machine Learning · Computer Science 2025-09-05 Grzegorz Miebs , Rafał A. Bachorz

We applied machine learning methods to predict chemical hazards focusing on fish acute toxicity across taxa. We analyzed the relevance of taxonomy and experimental setup, showing that taking them into account can lead to considerable…

Quantitative Methods · Quantitative Biology 2022-05-09 Jimeng Wu , Simone D'Ambrosi , Lorenz Ammann , Julita Stadnicka-Michalak , Kristin Schirmer , Marco Baity-Jesi

Recently, molecular fingerprints extracted from three-dimensional (3D) structures using advanced mathematics, such as algebraic topology, differential geometry, and graph theory have been paired with efficient machine learning, especially…

Biomolecules · Quantitative Biology 2020-06-24 Kaifu Gao , Duc Duy Nguyen , Vishnu Sresht , Alan M. Mathiowetz , Meihua Tu , Guo-Wei Wei

Machine Learning facilitates building a large variety of models, starting from elementary linear regression models to very complex neural networks. Neural networks are currently limited by the size of data provided and the huge…

Materials Science · Physics 2023-08-25 Ruman Moulik , Ankita Phutela , Sajjan Sheoran , Saswata Bhattacharya

Background: While deep learning technology, which has the capability of obtaining latent representations based on large-scale data, can be a potential solution for the discovery of a novel aging biomarker, existing deep learning methods for…

Machine Learning · Computer Science 2023-02-02 Seong-Eun Moon , Ji Won Yoon , Shinyoung Joo , Yoohyung Kim , Jae Hyun Bae , Seokho Yoon , Haanju Yoo , Young Min Cho

Explainable ML for molecular toxicity prediction is a promising approach for efficient drug development and chemical safety. A predictive ML model of toxicity can reduce experimental cost and time while mitigating ethical concerns by…

Quantitative Methods · Quantitative Biology 2022-04-15 Bhanushee Sharma , Vijil Chenthamarakshan , Amit Dhurandhar , Shiranee Pereira , James A. Hendler , Jonathan S. Dordick , Payel Das

Modeling biological soft tissue is complex in part due to material heterogeneity. Microstructural patterns, which play a major role in defining the mechanical behavior of these tissues, are both challenging to characterize, and difficult to…

Machine Learning · Computer Science 2022-07-19 Hiba Kobeissi , Saeed Mohammadzadeh , Emma Lejeune
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