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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.…

In contrast to their remarkable performance on general knowledge QA, the true abilities of Large Language Models (LLMs) in tasks demanding deep, specialized reasoning, such as in protein biology, have yet to be thoroughly investigated.…

Quantitative Methods · Quantitative Biology 2025-12-30 Dingyi Rong , Zijian Chen , Qi Jia , Kaiwei Zhang , Haotian Lu , Guangtao Zhai , Ning Liu

Pervasive sensing is transforming health and activity monitoring by enabling continuous and automated data collection through advanced sensing modalities. While extensive research has been conducted on human subjects, its application in…

Systems and Control · Electrical Eng. & Systems 2025-03-21 Jeffrey D Shulkin , Abhipol Vibhatasilpin , Vedant Adhana

Advancements in scientific instrument sensors and connected devices provide unprecedented insight into ongoing experiments and present new opportunities for control, optimization, and steering. However, the diversity of sensors and…

Distributed, Parallel, and Cluster Computing · Computer Science 2022-05-04 Jakob R. Elias , Ryan Chard , Maksim Levental , Zhengchun Liu , Ian Foster , Santanu Chaudhuri

Online artificial intelligence (AI) algorithms are an important component of digital health interventions. These online algorithms are designed to continually learn and improve their performance as streaming data is collected on…

Computers and Society · Computer Science 2025-10-29 Susobhan Ghosh , Bhanu T. Gullapalli , Daiqi Gao , Asim Gazi , Anna Trella , Ziping Xu , Kelly Zhang , Susan A. Murphy

Cross-modal medical image translation is an essential task for synthesizing missing modality data for clinical diagnosis. However, current learning-based techniques have limitations in capturing cross-modal and global features, restricting…

Computer Vision and Pattern Recognition · Computer Science 2023-10-05 Xuhang Chen , Chi-Man Pun , Shuqiang Wang

Integrative modeling enables structure determination for large macromolecular assemblies by combining data from multiple sources of experiment data with theoretical and computational predictions. Recent advancements in AI-based structure…

Biomolecules · Quantitative Biology 2025-01-24 Kartik Majila , Shreyas Arvindekar , Muskaan Jindal , Shruthi Viswanath

The adoption of Deep Learning algorithms in the medical imaging field is a prominent area of research, with high potential for advancing AI-based Computer-aided diagnosis (AI-CAD) solutions. However, current solutions face challenges due to…

Computer Vision and Pattern Recognition · Computer Science 2024-12-30 Iury B. de A. Santos , André C. P. L. F. de Carvalho

Physics-Informed Machine Learning (PIML) has successfully integrated mechanistic understanding into machine learning, particularly in domains governed by well-known physical laws. This success has motivated efforts to apply PIML to biology,…

Machine Learning · Computer Science 2025-10-30 Julien Martinelli

Existing machine learning methods for molecular (e.g., gene) embeddings are restricted to specific tasks or data modalities, limiting their effectiveness within narrow domains. As a result, they fail to capture the full breadth of gene…

We introduce a new dataset, MELINDA, for Multimodal biomEdicaL experImeNt methoD clAssification. The dataset is collected in a fully automated distant supervision manner, where the labels are obtained from an existing curated database, and…

Computation and Language · Computer Science 2020-12-18 Te-Lin Wu , Shikhar Singh , Sayan Paul , Gully Burns , Nanyun Peng

In the modern world, technology is at its peak. Different avenues in programming and technology have been explored for data analysis, automation, and robotics. Machine learning is key to optimize data analysis, make accurate predictions,…

Subcellular Processes · Quantitative Biology 2023-10-18 Akshay Bhalla , Suraj Rajendran

This paper introduces MMMU-Pro, a robust version of the Massive Multi-discipline Multimodal Understanding and Reasoning (MMMU) benchmark. MMMU-Pro rigorously assesses multimodal models' true understanding and reasoning capabilities through…

Computation and Language · Computer Science 2025-05-23 Xiang Yue , Tianyu Zheng , Yuansheng Ni , Yubo Wang , Kai Zhang , Shengbang Tong , Yuxuan Sun , Botao Yu , Ge Zhang , Huan Sun , Yu Su , Wenhu Chen , Graham Neubig

High-throughput technologies such as next generation sequencing allow biologists to observe cell function with unprecedented resolution, but the resulting datasets are too large and complicated for humans to understand without the aid of…

Applications · Statistics 2021-10-08 David S. Watson

One of the key goals of artificial intelligence (AI) is the development of a multimodal system that facilitates communication with the visual world (image and video) using a natural language query. Earlier works on medical question…

Computer Vision and Pattern Recognition · Computer Science 2024-12-17 Deepak Gupta , Dina Demner-Fushman

Cutting-edge robot learning techniques including foundation models and imitation learning from humans all pose huge demands on large-scale and high-quality datasets which constitute one of the bottleneck in the general intelligent robot…

Robotics · Computer Science 2026-04-27 Shuo Jiang , Haonan Li , Ruochen Ren , Yanmin Zhou , Zhipeng Wang , Bin He

Recent advances in remote health monitoring systems have significantly benefited patients and played a crucial role in improving their quality of life. However, while physiological health-focused solutions have demonstrated increasing…

Machine Learning · Computer Science 2023-03-28 Shayan Fazeli , Lionel Levine , Mehrab Beikzadeh , Baharan Mirzasoleiman , Bita Zadeh , Tara Peris , Majid Sarrafzadeh

Laboratory research is a complex, collaborative process that involves several stages, including hypothesis formulation, experimental design, data generation and analysis, and manuscript writing. Although reproducibility and data sharing are…

Other Quantitative Biology · Quantitative Biology 2025-02-12 Katharine Y. Chen , Maria Toro-Moreno , Arvind Rasi Subramaniam

Machine learning (ML), deep learning (DL), and artificial intelligence (AI) are of increasing importance in biomedicine. The goal of this work is to show progress in ML in digital health, to exemplify future needs and trends, and to…

Artificial Intelligence · Computer Science 2019-11-19 Fabian V. Filipp

Machine learning models built on training data with multiple modalities can reveal new insights that are not accessible through unimodal datasets. For example, cardiac magnetic resonance images (MRIs) and electrocardiograms (ECGs) are both…

Machine Learning · Computer Science 2023-12-05 Bum Chul Kwon , Samuel Friedman , Kai Xu , Steven A Lubitz , Anthony Philippakis , Puneet Batra , Patrick T Ellinor , Kenney Ng
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