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Related papers: Foundation Models for AI-Enabled Biological Design

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Artificial Intelligence (AI) has demonstrated unprecedented performance across various domains, and its application to communication systems is an active area of research. While current methods focus on task-specific solutions, the broader…

Artificial Intelligence · Computer Science 2025-05-21 Davide Buffelli , Sowmen Das , Yu-Wei Lin , Sattar Vakili , Chien-Yi Wang , Masoud Attarifar , Pritthijit Nath , Da-shan Shiu

The pursuit of creating artificial intelligence (AI) mirrors our longstanding fascination with understanding our own intelligence. From the myths of Talos to Aristotelian logic and Heron's inventions, we have sought to replicate the marvels…

Neurons and Cognition · Quantitative Biology 2024-11-26 Nima Dehghani , Michael Levin

Diverse subfields of neuroscience have enriched artificial intelligence for many decades. With recent advances in machine learning and artificial neural networks, many neuroscientists are partnering with AI researchers and machine learning…

Neurons and Cognition · Quantitative Biology 2019-12-03 Thomas Dean , Chaofei Fan , Francis E. Lewis , Megumi Sano

Pathology has played a crucial role in the diagnosis and evaluation of patient tissue samples obtained from surgeries and biopsies for many years. The advent of Whole Slide Scanners and the development of deep learning technologies have…

Computer Vision and Pattern Recognition · Computer Science 2024-08-07 Mieko Ochi , Daisuke Komura , Shumpei Ishikawa

The introduction of large language models has significantly expanded global demand for computing; addressing this growing demand requires novel approaches that introduce new capabilities while addressing extant needs. Although inspiration…

Neural and Evolutionary Computing · Computer Science 2026-02-04 Wilkie Olin-Ammentorp

We survey applications of pretrained foundation models in robotics. Traditional deep learning models in robotics are trained on small datasets tailored for specific tasks, which limits their adaptability across diverse applications. In…

Proteins perform critical processes in all living systems: converting solar energy into chemical energy, replicating DNA, as the basis of highly performant materials, sensing and much more. While an incredible range of functionality has…

Biomolecules · Quantitative Biology 2021-09-29 Leonardo V. Castorina , Rokas Petrenas , Kartic Subr , Christopher W. Wood

Social problems stemming from the shortage of radiologists are intensifying, and artificial intelligence is being highlighted as a potential solution. Recently emerging large-scale generative AI has expanded from large language models…

Computer Vision and Pattern Recognition · Computer Science 2024-09-23 Inwoo Seo , Eunkyoung Bae , Joo-Young Jeon , Young-Sang Yoon , Jiho Cha

Proteins, essential to biological systems, perform functions intricately linked to their three-dimensional structures. Understanding the relationship between protein structures and their amino acid sequences remains a core challenge in…

Quantitative Methods · Quantitative Biology 2024-11-04 Liang He , Peiran Jin , Yaosen Min , Shufang Xie , Lijun Wu , Tao Qin , Xiaozhuan Liang , Kaiyuan Gao , Yuliang Jiang , Tie-Yan Liu

Biology is at the precipice of a new era where AI accelerates and amplifies the ability to study how cells operate, organize, and work as systems, revealing why disease happens and how to correct it. Organizations globally are prioritizing…

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

Unlocking deep and interpretable biological reasoning from complex genomic data remains a major AI challenge limiting scientific progress. While current DNA foundation models excel at representing sequences, they struggle with multi-step…

Large AI models, or foundation models, are models recently emerging with massive scales both parameter-wise and data-wise, the magnitudes of which can reach beyond billions. Once pretrained, large AI models demonstrate impressive…

Artificial Intelligence · Computer Science 2023-09-26 Jianing Qiu , Lin Li , Jiankai Sun , Jiachuan Peng , Peilun Shi , Ruiyang Zhang , Yinzhao Dong , Kyle Lam , Frank P. -W. Lo , Bo Xiao , Wu Yuan , Ningli Wang , Dong Xu , Benny Lo

Generative artificial intelligence models learn probability distributions from data and produce novel samples that capture the salient properties of their training sets. Proteins are particularly attractive for such approaches given their…

Biomolecules · Quantitative Biology 2026-02-27 Filippo Stocco , Michele Garibbo , Noelia Ferruz

Recent advances in generative artificial intelligence (AI) technologies have been significantly driven by models such as generative adversarial networks (GANs), variational autoencoders (VAEs), and denoising diffusion probabilistic models…

Machine Learning · Computer Science 2024-10-24 Chengyuan Li , Tianyu Zhang , Xusheng Du , Ye Zhang , Haoran Xie

The rise of biomedical foundation models creates new hurdles in model testing and authorization, given their broad capabilities and susceptibility to complex distribution shifts. We suggest tailoring robustness tests according to…

Software Engineering · Computer Science 2025-09-01 R. Patrick Xian , Noah R. Baker , Tom David , Qiming Cui , A. Jay Holmgren , Stefan Bauer , Madhumita Sushil , Reza Abbasi-Asl

The inception of large language models has helped advance state-of-the-art performance on numerous natural language tasks. This has also opened the door for the development of foundation models for other domains and data modalities such as…

Artificial Intelligence · Computer Science 2022-12-02 Yara Rizk , Praveen Venkateswaran , Vatche Isahagian , Vinod Muthusamy

Proteins are the fundamental macromolecules that play diverse and crucial roles in all living matter and have tremendous implications in healthcare, manufacturing, and biotechnology. Their functions are largely determined by the sequences…

Biomolecules · Quantitative Biology 2024-09-17 Boqiao Lai

Advances in deep learning have opened an era of abundant and accurate predicted protein structures; however, similar progress in protein ensembles has remained elusive. This review highlights several recent research directions towards…

Biomolecules · Quantitative Biology 2025-09-23 Bowen Jing , Bonnie Berger , Tommi Jaakkola

Foundation models (FMs) are catalyzing a transformative shift in materials science (MatSci) by enabling scalable, general-purpose, and multimodal AI systems for scientific discovery. Unlike traditional machine learning models, which are…

Machine Learning · Computer Science 2025-06-27 Minh-Hao Van , Prateek Verma , Chen Zhao , Xintao Wu