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Deep learning has become a powerful tool in computational biology, revolutionising the analysis and interpretation of biological data over time. In our article review, we delve into various aspects of deep learning in computational biology.…

The critical need for transparent and trustworthy machine learning in cybersecurity operations drives the development of this integrated Explainable AI (XAI) framework. Our methodology addresses three fundamental challenges in deploying AI…

Cryptography and Security · Computer Science 2026-02-24 Norrakith Srisumrith , Sunantha Sodsee

Deep Learning has already been successfully applied to analyze industrial sensor data in a variety of relevant use cases. However, the opaque nature of many well-performing methods poses a major obstacle for real-world deployment.…

Machine Learning · Computer Science 2023-10-20 Thomas Decker , Michael Lebacher , Volker Tresp

The Regularized Nonlinear Acceleration (RNA) algorithm is an acceleration method capable of improving the rate of convergence of many optimization schemes such as gradient descend, SAGA or SVRG. Until now, its analysis is limited to convex…

Optimization and Control · Mathematics 2018-06-04 Damien Scieur , Edouard Oyallon , Alexandre d'Aspremont , Francis Bach

In recent years, deep learning methods applying unsupervised learning to train deep layers of neural networks have achieved remarkable results in numerous fields. In the past, many genetic algorithms based methods have been successfully…

Neural and Evolutionary Computing · Computer Science 2017-11-22 Eli David , Iddo Greental

Explainable AI (XAI) is an active research area to interpret a neural network's decision by ensuring transparency and trust in the task-specified learned models. Recently, perturbation-based model analysis has shown better interpretation,…

Computer Vision and Pattern Recognition · Computer Science 2021-02-17 Mahesh Sudhakar , Sam Sattarzadeh , Konstantinos N. Plataniotis , Jongseong Jang , Yeonjeong Jeong , Hyunwoo Kim

Antibiotic Resistance (AR) is a critical global health challenge that necessitates the development of cost-effective, efficient, and accurate diagnostic tools. Given the genetic basis of AR, techniques such as Polymerase Chain Reaction…

Quantitative Methods · Quantitative Biology 2025-02-24 David Hagerman , Anna Johnning , Roman Naeem , Fredrik Kahl , Erik Kristiansson , Lennart Svensson

Gene selection plays a pivotal role in oncology research for improving outcome prediction accuracy and facilitating cost-effective genomic profiling for cancer patients. This paper introduces two gene selection strategies for deep…

Genomics · Quantitative Biology 2024-03-05 Akhila Krishna , Ravi Kant Gupta , Pranav Jeevan , Amit Sethi

Machine learning (ML) models serve as powerful tools for threat detection and mitigation; however, they also introduce potential new risks. Adversarial input can exploit these models through standard interfaces, thus creating new attack…

Cryptography and Security · Computer Science 2025-03-10 Betül Güvenç Paltun , Ramin Fuladi , Rim El Malki

Both humans and machine learning models learn from experience, particularly in safety- and reliability-critical domains. While psychology seeks to understand human cognition, the field of Explainable AI (XAI) develops methods to interpret…

Human-Computer Interaction · Computer Science 2025-11-25 Roussel Rahman , Aashwin Ananda Mishra , Wan-Lin Hu

Artificial intelligence (AI) holds great promise for supporting clinical trials, from patient recruitment and endpoint assessment to treatment response prediction. However, deploying AI without safeguards poses significant risks,…

Machine Learning · Computer Science 2025-10-09 Yao Chen , David Ohlssen , Aimee Readie , Gregory Ligozio , Ruvie Martin , Thibaud Coroller

Secondary structure plays an important role in determining the function of non-coding RNAs. Hence, identifying RNA secondary structures is of great value to research. Computational prediction is a mainstream approach for predicting RNA…

Biomolecules · Quantitative Biology 2021-09-15 Qi Zhao , Zheng Zhao , Xiaoya Fan , Zhengwei Yuan , Qian Mao , Yudong Yao

Epigenetics encompasses mechanisms that can alter the expression of genes without changing the underlying genetic sequence. The epigenetic regulation of gene expression is initiated and sustained by several mechanisms such as DNA…

Genomics · Quantitative Biology 2025-04-08 Muhammad Tahir , Mahboobeh Norouzi , Shehroz S. Khan , James R. Davie , Soichiro Yamanaka , Ahmed Ashraf

Artificial intelligence (AI) is increasingly being used to augment and automate cyber operations, altering the scale, speed, and accessibility of malicious activity. These shifts raise urgent questions about when AI systems introduce…

Cryptography and Security · Computer Science 2026-01-27 Krystal Jackson , Deepika Raman , Jessica Newman , Nada Madkour , Charlotte Yuan , Evan R. Murphy

Explainable Artificial Intelligence (XAI) is an emerging area of research in the field of Artificial Intelligence (AI). XAI can explain how AI obtained a particular solution (e.g., classification or object detection) and can also answer…

Machine Learning · Computer Science 2021-07-16 Prashant Gohel , Priyanka Singh , Manoranjan Mohanty

Artificial Intelligence-enabled systems are increasingly being deployed in real-world safety-critical settings involving human participants. It is vital to ensure the safety of such systems and stop the evolution of the system with error…

Human-Computer Interaction · Computer Science 2024-07-30 Aranyak Maity , Ayan Banerjee , Sandeep Gupta

A longstanding challenge surrounding deep learning algorithms is unpacking and understanding how they make their decisions. Explainable Artificial Intelligence (XAI) offers methods to provide explanations of internal functions of algorithms…

Artificial Intelligence · Computer Science 2022-08-16 Amin Nayebi , Sindhu Tipirneni , Brandon Foreman , Chandan K. Reddy , Vignesh Subbian

We propose a methodology for designing dependable Artificial Neural Networks (ANN) by extending the concepts of understandability, correctness, and validity that are crucial ingredients in existing certification standards. We apply the…

Recent advancements in deep learning techniques have spurred considerable interest in their application to hyperspectral imagery processing. This paper provides a comprehensive review of the latest developments in this field, focusing on…

Image and Video Processing · Electrical Eng. & Systems 2024-04-11 Nafiseh Ghasemi , Jon Alvarez Justo , Marco Celesti , Laurent Despoisse , Jens Nieke

Modern general-purpose artificial intelligence (AI) systems present an urgent risk management challenge, as their rapidly evolving capabilities and potential for catastrophic harm outpace our ability to reliably assess their risks. Current…

Artificial Intelligence · Computer Science 2025-07-03 Anna Katariina Wisakanto , Joe Rogero , Avyay M. Casheekar , Richard Mallah