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Delays in protein synthesis cause a confounding effect when constructing Gene Regulatory Networks (GRNs) from RNA-sequencing time-series data. Accurate GRNs can be very insightful when modelling development, disease pathways, and drug…

Molecular Networks · Quantitative Biology 2020-10-07 Jacob Moss , Pietro Lió

Our work is concerned with the generation and targeted design of RNA, a type of genetic macromolecule that can adopt complex structures which influence their cellular activities and functions. The design of large scale and complex…

Biomolecules · Quantitative Biology 2021-02-02 Zichao Yan , William L. Hamilton , Mathieu Blanchette

Additive manufacturing enables the fabrication of complex designs while minimizing waste, but faces challenges related to defects and process anomalies. This study presents a novel multimodal Retrieval-Augmented Generation-based framework…

Artificial Intelligence · Computer Science 2025-05-21 Kiarash Naghavi Khanghah , Zhiling Chen , Lela Romeo , Qian Yang , Rajiv Malhotra , Farhad Imani , Hongyi Xu

Generative artificial intelligence (AI) technology is revolutionizing the computing industry. Not only its applications have broadened to various sectors but also poses new system design and optimization opportunities. The technology is…

Modern generative models achieve excellent quality in a variety of tasks including image or text generation and chemical molecule modeling. However, existing methods often lack the essential ability to generate examples with requested…

Retrieval-Augmented Generation (RAG) improves factual grounding in large language models but suffers from substantial latency due to synchronous retrieval. While recent work explores asynchronous retrieval, existing approaches rely on…

Computation and Language · Computer Science 2026-05-19 Wuyang Zhang , Shichao Pei

Global climate change has reduced crop resilience and pesticide efficacy, making reliance on synthetic pesticides inevitable, even though their widespread use poses significant health and environmental risks. While these pesticides remain a…

Machine Learning · Computer Science 2025-03-17 Taehan Kim , Wonduk Seo

Leveraging powerful deep learning techniques, the end-to-end (E2E) learning of communication system is able to outperform the classical communication system. Unfortunately, this communication system cannot be trained by deep learning…

Information Theory · Computer Science 2022-04-04 Hao Jiang , Shuangkaisheng Bi , Linglong Dai , Hao Wang , Jiankun Zhang

Machine learning provides a novel avenue for the study of experimental realizations of many-body systems, and has recently been proven successful in analyzing properties of experimental data of ultracold quantum gases. We here show that…

Computational Physics · Physics 2021-09-29 Corneel Casert , Kyle Mills , Tom Vieijra , Jan Ryckebusch , Isaac Tamblyn

The ability to accurately model random fields plays a critical role in science and engineering for problems involving uncertain, spatially-varying quantities such as heterogeneous material properties and turbulent flows. Deep generative…

Large language models are powerful text processors and reasoners, but are still subject to limitations including outdated knowledge and hallucinations, which necessitates connecting them to the world. Retrieval-augmented large language…

Computation and Language · Computer Science 2023-10-24 Zhihong Shao , Yeyun Gong , Yelong Shen , Minlie Huang , Nan Duan , Weizhu Chen

Computational imaging is increasingly vital for a broad spectrum of applications, ranging from biological to material sciences. This includes applications where the object is known and sufficiently sparse, allowing it to be described with a…

Image and Video Processing · Electrical Eng. & Systems 2024-01-17 Jacob Seifert , Yifeng Shao , Allard P. Mosk

Recently, molecule generation using deep learning has been actively investigated in drug discovery. In this field, Transformer and VAE are widely used as powerful models, but they are rarely used in combination due to structural and…

Biomolecules · Quantitative Biology 2024-04-08 Yasuhiro Yoshikai , Tadahaya Mizuno , Shumpei Nemoto , Hiroyuki Kusuhara

In recent years, deep learning techniques have made significant strides in molecular generation for specific targets, driving advancements in drug discovery. However, existing molecular generation methods present significant limitations:…

Machine Learning · Computer Science 2025-03-12 Taojie Kuang , Qianli Ma , Athanasios V. Vasilakos , Yu Wang , Qiang , Cheng , Zhixiang Ren

Probabilistic generative models are attractive for scientific modeling because their inferred parameters can be used to generate hypotheses and design experiments. This requires that the learned model provide an accurate representation of…

Machine Learning · Statistics 2023-01-18 Liyun Tu , Austin Talbot , Neil Gallagher , David Carlson

We introduce a novel generative autoencoder network model that learns to encode and reconstruct images with high quality and resolution, and supports smooth random sampling from the latent space of the encoder. Generative adversarial…

Machine Learning · Computer Science 2018-10-10 Ari Heljakka , Arno Solin , Juho Kannala

Simulating the human mobility and generating large-scale trajectories are of great use in many real-world applications, such as urban planning, epidemic spreading analysis, and geographic privacy protect. Although many previous works have…

Machine Learning · Computer Science 2023-01-19 Wenjun Jiang , Wayne Xin Zhao , Jingyuan Wang , Jiawei Jiang

Low-rank matrix estimation is a fundamental problem in statistics and machine learning with applications across biomedical sciences, including genetics, medical imaging, drug discovery, and electronic health record data analysis. In the…

Methodology · Statistics 2025-08-20 Sean McGrath , Cenhao Zhu , Ryan O'Dea , Min Guo , Rui Duan

Current challenges in developing foundational models for volumetric imaging data, such as magnetic resonance imaging (MRI), stem from the computational complexity of training state-of-the-art architectures in high dimensions and curating…

Image and Video Processing · Electrical Eng. & Systems 2025-07-14 Ulzee An , Moonseong Jeong , Simon A. Lee , Aditya Gorla , Yuzhe Yang , Sriram Sankararaman

Soft sensing infers hard-to-measure data through a large number of easily obtainable variables. However, in complex industrial scenarios, the issue of insufficient data volume persists, which diminishes the reliability of soft sensing.…

Machine Learning · Computer Science 2025-12-23 Zesen Wang , Yonggang Li , Lijuan Lan