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Accurate sensing of chemical concentrations is essential for numerous biological processes. The accuracy of this sensing, for small numbers of molecules, is limited by shot noise. Corresponding theoretical limits on sensing precision, as a…

Biological Physics · Physics 2026-02-09 Ketevan Danelia , Sean A. Ridout , Ilya Nemenman

Odor sensory evaluation has a broad application in food, clothing, cosmetics, and other fields. Traditional artificial sensory evaluation has poor repeatability, and the machine olfaction represented by the electronic nose (E-nose) is…

Artificial Intelligence · Computer Science 2023-11-27 Xiuxin Xia , Yuchen Guo , Yanwei Wang , Yuchao Yang , Yan Shi , Hong Men

Building on the computer science concept of code smells, we initiate the study of law smells, i.e., patterns in legal texts that pose threats to the comprehensibility and maintainability of the law. With five intuitive law smells as running…

Information Retrieval · Computer Science 2021-10-26 Corinna Coupette , Dirk Hartung , Janis Beckedorf , Maximilian Böther , Daniel Martin Katz

This paper makes the case that a powerful new discipline, which we term perception engineering, is steadily emerging. It follows from a progression of ideas that involve creating illusions, from historical paintings and film, to video games…

We present a model for olfactory coding based on spatial representation of glomerular responses. In this model distinct odorants activate specific subsets of glomeruli, dependent upon the odorant's chemical identity and concentration. The…

Neurons and Cognition · Quantitative Biology 2007-05-23 A. Koulakov , A. Gelperin , D. Rinberg

Recent work has shown how predictive modeling can endow agents with rich knowledge of their surroundings, improving their ability to act in complex environments. We propose question-answering as a general paradigm to decode and understand…

It is well recognized that sensory perceptions and language have interconnections through numerous studies in psychology, neuroscience, and sensorial linguistics. Set in this rich context we ask whether the use of sensorial language in…

Computation and Language · Computer Science 2022-09-27 Osama Khalid , Padmini Srinivasan

Predicting the chemical properties of compounds is crucial in discovering novel materials and drugs with specific desired characteristics. Recent significant advances in machine learning technologies have enabled automatic predictive…

Quantitative Methods · Quantitative Biology 2021-12-10 Yang Liu , Hisashi Kashima

Large Language Models (LLMs) stand at the forefront of a number of Natural Language Processing (NLP) tasks. Despite the widespread adoption of LLMs in NLP, much of their potential in broader fields remains largely unexplored, and…

Machine Learning · Computer Science 2024-03-11 Zhiqiang Zhong , Kuangyu Zhou , Davide Mottin

There is an intuitive analogy of an organic chemist's understanding of a compound and a language speaker's understanding of a word. Consequently, it is possible to introduce the basic concepts and analyze potential impacts of linguistic…

Machine Learning · Computer Science 2017-11-16 Philippe Schwaller , Theophile Gaudin , David Lanyi , Costas Bekas , Teodoro Laino

Molecular generation and molecular property prediction are both crucial for drug discovery, but they are often developed independently. Inspired by recent studies, which demonstrate that diffusion model, a prominent generative approach, can…

Machine Learning · Computer Science 2025-04-07 Shikun Feng , Yuyan Ni , Yan Lu , Zhi-Ming Ma , Wei-Ying Ma , Yanyan Lan

Accurate prediction of atomistic, thermodynamic, and kinetic properties from molecular structures underpins materials innovation. Existing computational and experimental approaches lack the scalability required to navigate chemical space…

We provide a novel notion of what it means to be interpretable, looking past the usual association with human understanding. Our key insight is that interpretability is not an absolute concept and so we define it relative to a target model,…

Artificial Intelligence · Computer Science 2018-10-30 Amit Dhurandhar , Vijay Iyengar , Ronny Luss , Karthikeyan Shanmugam

There is increasing adoption of artificial intelligence in drug discovery. However, existing studies use machine learning to mainly utilize the chemical structures of molecules but ignore the vast textual knowledge available in chemistry.…

Machine Learning · Computer Science 2024-01-31 Shengchao Liu , Weili Nie , Chengpeng Wang , Jiarui Lu , Zhuoran Qiao , Ling Liu , Jian Tang , Chaowei Xiao , Anima Anandkumar

In semantic technologies, the shared common understanding of the structure of information among artifacts (people or software agents) can be realized by building an ontology. To do this, it is imperative for an ontology builder to answer…

Artificial Intelligence · Computer Science 2015-09-21 Thabet Slimani

Machine learning (ML) is transforming all areas of science. The complex and time-consuming calculations in molecular simulations are particularly suitable for a machine learning revolution and have already been profoundly impacted by the…

Chemical Physics · Physics 2019-11-11 Frank Noé , Alexandre Tkatchenko , Klaus-Robert Müller , Cecilia Clementi

Natural language is expected to be a key medium for various human-machine interactions in the era of large language models. When it comes to the biochemistry field, a series of tasks around molecules (e.g., property prediction, molecule…

Computation and Language · Computer Science 2023-06-22 Zheni Zeng , Bangchen Yin , Shipeng Wang , Jiarui Liu , Cheng Yang , Haishen Yao , Xingzhi Sun , Maosong Sun , Guotong Xie , Zhiyuan Liu

Both scientists and children make important structural discoveries, yet their computational underpinnings are not well understood. Structure discovery has previously been formalized as probabilistic inference about the right structural form…

Machine Learning · Computer Science 2017-11-23 Brenden M. Lake , Neil D. Lawrence , Joshua B. Tenenbaum

Conventional wisdom of materials modelling stipulates that both chemical composition and crystal structure are integral in the prediction of physical properties. However, recent developments challenge this by reporting accurate…

Materials Science · Physics 2022-06-29 Siyu Isaac Parker Tian , Aron Walsh , Zekun Ren , Qianxiao Li , Tonio Buonassisi

The integration of molecular and natural language representations has emerged as a focal point in molecular science, with recent advancements in Language Models (LMs) demonstrating significant potential for comprehensive modeling of both…

Biomolecules · Quantitative Biology 2025-03-19 Qizhi Pei , Rui Yan , Kaiyuan Gao , Jinhua Zhu , Lijun Wu