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Microbes can affect processes from food production to human health. Such microbes are not isolated, but rather interact with each other and establish connections with their living environments. Understanding these interactions is essential…

Applications · Statistics 2021-09-07 Liang Chen , Qiuyan He , Hui Wan , Shun He , Minghua Deng

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

Antimicrobial-resistant (AMR) microbes are a growing challenge in healthcare, rendering modern medicines ineffective. AMR arises from antibiotic production and bacterial evolution, but quantifying its transmission remains difficult. With…

Machine Learning · Computer Science 2025-02-04 Qian Fu , Yuzhe Zhang , Yanfeng Shu , Ming Ding , Lina Yao , Chen Wang

With the advancements in computer technology, there is a rapid development of intelligent systems to understand the complex relationships in data to make predictions and classifications. Artificail Intelligence based framework is rapidly…

Machine Learning · Computer Science 2021-07-30 G Jignesh Chowdary , Suganya G , Premalatha M , Asnath Victy Phamila Y , Karunamurthy K

Predicting compound-protein affinity is critical for accelerating drug discovery. Recent progress made by machine learning focuses on accuracy but leaves much to be desired for interpretability. Through molecular contacts underlying…

Biomolecules · Quantitative Biology 2020-01-01 Mostafa Karimi , Di Wu , Zhangyang Wang , Yang Shen

As antibiotic-resistant bacterial strains are rapidly spreading worldwide, infections caused by these strains are emerging as a global crisis causing the death of millions of people every year. Antimicrobial Peptides (AMPs) are one of the…

Antimicrobial resistance is an emerging global health crisis that is undermining advances in modern medicine and, if unmitigated, threatens to kill 10 million people per year worldwide by 2050. Research over the last decade has demonstrated…

Quantitative Methods · Quantitative Biology 2020-09-24 K. Farquhar , H. Flohr , D. A. Charlebois

Due to the rise in antimicrobial resistance, identifying novel compounds with antibiotic potential is crucial for combatting this global health issue. However, traditional drug development methods are costly and inefficient. Recognizing the…

Biomolecules · Quantitative Biology 2025-02-18 Gen Zhou , Sugitha Janarthanan , Yutong Lu , Pingzhao Hu

Present study is dedicated to the problem of electrochemical analysis of multicomponent mixtures such as milk. A combination of cyclic voltammetry facilities and machine learning technique made it possible to create a pattern recognition…

Machine learning (ML) has been playing important roles in drug discovery in the past years by providing (pre-)screening tools for prioritising chemical compounds to pass through wet lab experiments. One of the main ML tasks in drug…

Biomolecules · Quantitative Biology 2025-02-25 Alex G. C. de Sá , David B. Ascher

Diabetes remains a significant health challenge globally, contributing to severe complications like kidney disease, vision loss, and heart issues. The application of machine learning (ML) in healthcare enables efficient and accurate disease…

Machine Learning · Computer Science 2025-05-13 Mahade Hasan , Farhana Yasmin

Capsule network is the most recent exciting advancement in the deep learning field and represents positional information by stacking features into vectors. The dynamic routing algorithm is used in the capsule network, however, there are…

Machine Learning · Computer Science 2019-11-20 Qiang Ren , Shaohua Shang , Lianghua He

The optimal design of compounds through manipulating properties at the molecular level is often the key to considerable scientific advances and improved process systems performance. This paper highlights key trends, challenges, and…

Biomolecules · Quantitative Biology 2020-07-13 Abdulelah S. Alshehri , Rafiqul Gani , Fengqi You

Absorption, distribution, metabolism, and excretion (ADME) studies are critical for drug discovery. Conventionally, these tasks, together with other chemical property predictions, rely on domain-specific feature descriptors, or…

Machine Learning · Computer Science 2018-03-22 Ke Liu , Xiangyan Sun , Lei Jia , Jun Ma , Haoming Xing , Junqiu Wu , Hua Gao , Yax Sun , Florian Boulnois , Jie Fan

The process of identifying and characterizing B-cell epitopes, which are the portions of antigens recognized by antibodies, is important for our understanding of the immune system, and for many applications including vaccine development,…

Quantitative Methods · Quantitative Biology 2025-12-10 Xiao Yuan

Electronic health records (EHR) is an inherently multimodal register of the patient's health status characterized by static data and multivariate time series (MTS). While MTS are a valuable tool for clinical prediction, their fusion with…

Understanding the relationship between antibody sequence, structure and function is essential for the design of antibody-based therapeutics and research tools. Recently, machine learning (ML) models mostly based on the application of large…

Quantitative Methods · Quantitative Biology 2025-10-29 Kevin Michalewicz , Mauricio Barahona , Barbara Bravi

In microbiome studies, it is often of great interest to identify clusters or partitions of microbiome profiles within a study population and to characterize the distinctive attributes of each resulting microbial community. While raw counts…

Methodology · Statistics 2025-08-18 Zhongmao Liu , Xiaohui Yin , Yanjiao Zhou , Gen Li , Kun Chen

During times of increasing antibiotic resistance and the spread of infectious diseases like COVID-19, it is important to classify genes related to antibiotic resistance. As natural language processing has advanced with transformer-based…

Computation and Language · Computer Science 2024-01-02 Hyunwoo Yoo , Bahrad Sokhansanj , James R. Brown , Gail Rosen

Digital systems find it challenging to keep up with cybersecurity threats. The daily emergence of more than 560,000 new malware strains poses significant hazards to the digital ecosystem. The traditional malware detection methods fail to…

Cryptography and Security · Computer Science 2025-04-28 Abrar Fahim , Shamik Dey , Md. Nurul Absur , Md Kamrul Siam , Md. Tahmidul Huque , Jafreen Jafor Godhuli