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The integration of biomolecular modeling with natural language (BL) has emerged as a promising interdisciplinary area at the intersection of artificial intelligence, chemistry and biology. This approach leverages the rich, multifaceted…

Computation and Language · Computer Science 2025-12-01 Qizhi Pei , Zhimeng Zhou , Kaiyuan Gao , Jinhua Zhu , Yue Wang , Zun Wang , Tao Qin , Lijun Wu , Rui Yan

Biological systems perform an astonishing array of dynamical processes -- including development and repair, regulation, behavior and motor control, sensing and signaling, and adaptation, among others. Powered by the transduction of stored…

Soft Condensed Matter · Physics 2025-09-04 James Clarke , Jake McGrath , Colin Johnson , José Alvarado

The current processes for building machine learning systems require practitioners with deep knowledge of machine learning. This significantly limits the number of machine learning systems that can be created and has led to a mismatch…

Scientific research is a major driving force in a knowledge based economy. Income, health and wellbeing depend on scientific progress. The better we understand the inner workings of the scientific enterprise, the better we can prompt,…

Digital Libraries · Computer Science 2015-03-12 Michael Ginda , Andrea Scharnhorst , Katy Borner

Systems engineering has developed a mature knowledge on how to design, integrate and manage complex industrial systems, whereas disciplines studying complex systems in nature or society also propose numerous tools for their understanding.…

Computers and Society · Computer Science 2018-05-28 Juste Raimbault

The biomolecules in and around a living cell -- proteins, nucleic acids, lipids, carbohydrates -- continuously sample myriad conformational states that are thermally accessible at physiological temperatures. Simultaneously, a given…

Biomolecules · Quantitative Biology 2014-07-15 Cameron Mura , Charles E. McAnany

Computer models are indispensable tools for understanding the Earth system. While high-resolution operational models have achieved many successes, they exhibit persistent biases, particularly in simulating extreme events and statistical…

Machine Learning · Computer Science 2025-10-16 Pouria Behnoudfar , Charlotte Moser , Marc Bocquet , Sibo Cheng , Nan Chen

As robots and other intelligent agents move from simple environments and problems to more complex, unstructured settings, manually programming their behavior has become increasingly challenging and expensive. Often, it is easier for a…

Robotics · Computer Science 2018-11-19 Takayuki Osa , Joni Pajarinen , Gerhard Neumann , J. Andrew Bagnell , Pieter Abbeel , Jan Peters

Many biological and physical systems exhibit behaviour at multiple spatial, temporal or population scales. Multiscale processes provide challenges when they are to be simulated using numerical techniques. While coarser methods such as…

Quantitative Methods · Quantitative Biology 2018-02-12 Cameron A. Smith , Christian A. Yates

Statistical modeling is a powerful tool for developing and testing theories by way of causal explanation, prediction, and description. In many disciplines there is near-exclusive use of statistical modeling for causal explanation and the…

Methodology · Statistics 2011-01-06 Galit Shmueli

The complexity of biological systems, and the increasingly large amount of associated experimental data, necessitates that we develop mathematical models to further our understanding of these systems. As biological systems are generally not…

Quantitative Methods · Quantitative Biology 2022-08-02 Sean T. Vittadello , Michael P. H. Stumpf

With the increasing interplay between experimental and computational approaches at multiple length scales, new research directions are emerging in materials science and computational mechanics. Such cooperative interactions find many…

Materials Science · Physics 2016-01-12 Rémi Dingreville , Richard A. Karnesky , Guillaume Puel , Jean-Hubert Schmitt

Unlike any other field, the science of morality has drawn attention from an extraordinarily diverse set of disciplines. An interdisciplinary research program has formed in which economists, biologists, neuroscientists, psychologists, and…

Populations and Evolution · Quantitative Biology 2019-07-23 Walter Veit

The grand challenges in biology today are being shaped by powerful high-throughput technologies that have revealed the genomes of many organisms, global expression patterns of genes and detailed information about variation within…

Statistics Theory · Mathematics 2007-06-13 Lior Pachter , Bernd Sturmfels

In this paper we present a step forward to improve general physics as an educational experience: the implementation of a new course component composed by innovative workshop activities based on computational modelling in the general physics…

Physics Education · Physics 2016-08-14 Rui Gomes Neves , Jorge Carvalho Silva , Vítor Duarte Teodoro

A vast array of transformative technologies developed over the past decade has enabled measurement and perturbation at ever increasing scale, yet our understanding of many systems remains limited by experimental capacity. Overcoming this…

Quantitative Methods · Quantitative Biology 2020-12-25 Brian Cleary , Aviv Regev

Mathematical and computational models can assist in gaining an understanding of cell behavior at many levels of organization. Here, we review models in the literature that focus on eukaryotic cell motility at 3 size scales: intracellular…

Cell Behavior · Quantitative Biology 2021-01-27 Andreas Buttenschön , Leah Edelstein-Keshet

While the uptake of data-driven approaches for materials science and chemistry is at an exciting, early stage, to realise the true potential of machine learning models for successful scientific discovery, they must have qualities beyond…

Materials Science · Physics 2022-06-28 Felipe Oviedo , Juan Lavista Ferres , Tonio Buonassisi , Keith Butler

Education in the digital period in which we live, is reaching challenges never before seen, preceded by phenomena that involve not only traditional social units, but also new virtual communities; Innovating is difficult, it is a challenge,…

Computers and Society · Computer Science 2017-06-29 Rommel Salas

Biological systems are often modeled as a system of ordinary differential equations (ODEs) with time-invariant parameters. However, cell signaling events or pharmacological interventions may alter the cellular state and induce multi-mode…

Quantitative Methods · Quantitative Biology 2020-04-28 Bing Liu