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Sequence comparison and alignment has had an enormous impact on our understanding of evolution, biology, and disease. Comparison and alignment of biological networks will likely have a similar impact. Existing network alignments use…

Molecular Networks · Quantitative Biology 2009-10-08 Oleksii Kuchaiev , Tijana Milenkovic , Vesna Memisevic , Wayne Hayes , Natasa Przulj

Machine learning is widely used to analyze biological sequence data. Non-sequential models such as SVMs or feed-forward neural networks are often used although they have no natural way of handling sequences of varying length. Recurrent…

Quantitative Methods · Quantitative Biology 2016-03-14 Søren Kaae Sønderby , Casper Kaae Sønderby , Henrik Nielsen , Ole Winther

Geometric Graph Neural Networks (GNNs) and Transformers have become state-of-the-art for learning from 3D protein structures. However, their reliance on message passing prevents them from capturing the hierarchical interactions that govern…

Machine Learning · Computer Science 2025-12-09 Chang Liu , Vivian Li , Linus Leong , Vladimir Radenkovic , Pietro Liò , Chaitanya K. Joshi

Graph neural networks (GNNs) have emerged as powerful tools for learning protein structures by capturing spatial relationships at the residue level. However, existing GNN-based methods often face challenges in learning multiscale…

Machine Learning · Computer Science 2026-02-03 Shih-Hsin Wang , Yuhao Huang , Taos Transue , Justin Baker , Jonathan Forstater , Thomas Strohmer , Bao Wang

Neural networks are now extensively used in perception, prediction and control of autonomous systems. Their deployment in safety-critical systems brings forth the need for verification techniques for such networks. As an alternative to…

Artificial Intelligence · Computer Science 2021-04-27 Moumita Das , Rajarshi Ray , Swarup Kumar Mohalik , Ansuman Banerjee

Text classification is a very common task nowadays and there are many efficient methods and algorithms that we can employ to accomplish it. Transformers have revolutionized the field of deep learning, particularly in Natural Language…

Machine Learning · Computer Science 2024-12-31 Christos Petridis

Continual acquisition of novel experience without interfering previously learned knowledge, i.e. continual learning, is critical for artificial neural networks, but limited by catastrophic forgetting. A neural network adjusts its parameters…

Machine Learning · Computer Science 2022-02-15 Liyuan Wang , Bo Lei , Qian Li , Hang Su , Jun Zhu , Yi Zhong

Identification of different neuronal cell types is critical for understanding their contribution to brain functions. Yet, automated and reliable classification of neurons remains a challenge, primarily because of their biological…

Neural and Evolutionary Computing · Computer Science 2020-09-29 Eirini Troullinou , Grigorios Tsagkatakis , Spyridon Chavlis , Gergely Turi , Wen-Ke Li , Attila Losonczy , Panagiotis Tsakalides , Panayiota Poirazi

This paper proposes a novel face recognition algorithm based on large-scale supervised hierarchical feature learning. The approach consists of two parts: hierarchical feature learning and large-scale model learning. The hierarchical feature…

Computer Vision and Pattern Recognition · Computer Science 2014-07-08 Jianguo Li , Yurong Chen

Traditional computational methods, such as the finite element analysis, have provided valuable insights into uncovering the underlying mechanisms of brain physical behaviors. However, precise predictions of brain physics require effective…

Machine Learning · Computer Science 2023-10-18 Jixin Hou , Nicholas Filla , Xianyan Chen , Mir Jalil Razavi , Tianming Liu , Xianqiao Wang

To reduce memory footprint and run-time latency, techniques such as neural network pruning and binarization have been explored separately. However, it is unclear how to combine the best of the two worlds to get extremely small and efficient…

Computer Vision and Pattern Recognition · Computer Science 2018-12-12 Yinghao Xu , Xin Dong , Yudian Li , Hao Su

Deep learning is playing a vital role in every field which involves data. It has emerged as a strong and efficient framework that can be applied to a broad spectrum of complex learning problems which were difficult to solve using…

Biomolecules · Quantitative Biology 2022-09-23 Faisal Ghaffar , Sarwar Khan , Gaddisa O. , Chen Yu-jhen

Artificial neural networks have gone through a recent rise in popularity, achieving state-of-the-art results in various fields, including image classification, speech recognition, and automated control. Both the performance and…

Neural and Evolutionary Computing · Computer Science 2016-11-08 Sean C. Smithson , Guang Yang , Warren J. Gross , Brett H. Meyer

In recent years artificial neural networks achieved performance close to or better than humans in several domains: tasks that were previously human prerogatives, such as language processing, have witnessed remarkable improvements in state…

Neurons and Cognition · Quantitative Biology 2019-02-14 Andrea Alamia , Victor Gauducheau , Dimitri Paisios , Rufin VanRullen

In contrast to offline working fashions, two research paradigms are devised for online learning: (1) Online Meta Learning (OML) learns good priors over model parameters (or learning to learn) in a sequential setting where tasks are revealed…

Machine Learning · Computer Science 2021-08-24 Chen Zhao , Feng Chen , Bhavani Thuraisingham

The topology of artificial neural networks has a significant effect on their performance. Characterizing efficient topology is a field of promising research in Artificial Intelligence. However, it is not a trivial task and it is mainly…

Neural and Evolutionary Computing · Computer Science 2022-05-23 Fabien Furfaro , Avner Bar-Hen , Geoffroy Berthelot

In recent years, periocular recognition has been developed as a valuable biometric identification approach, especially in wild environments (for example, masked faces due to COVID-19 pandemic) where facial recognition may not be applicable.…

Computer Vision and Pattern Recognition · Computer Science 2021-11-03 Veeru Talreja , Nasser M. Nasrabadi , Matthew C. Valenti

In this work we introduce impostor networks, an architecture that allows to perform fine-grained recognition with high accuracy and using a light-weight convolutional network, making it particularly suitable for fine-grained applications on…

Computer Vision and Pattern Recognition · Computer Science 2018-06-15 Vadim Lebedev , Artem Babenko , Victor Lempitsky

Artificial neural networks are simple and efficient machine learning tools. Defined originally in the traditional setting of simple vector data, neural network models have evolved to address more and more difficulties of complex real world…

Neural and Evolutionary Computing · Computer Science 2012-10-26 Marie Cottrell , Madalina Olteanu , Fabrice Rossi , Joseph Rynkiewicz , Nathalie Villa-Vialaneix

Sequence learning, prediction and replay have been proposed to constitute the universal computations performed by the neocortex. The Hierarchical Temporal Memory (HTM) algorithm realizes these forms of computation. It learns sequences in an…

Neurons and Cognition · Quantitative Biology 2022-07-21 Younes Bouhadjar , Dirk J. Wouters , Markus Diesmann , Tom Tetzlaff
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