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Machine learning methods are increasingly employed to address challenges faced by biologists. One area that will greatly benefit from this cross-pollination is the problem of biological sequence design, which has massive potential for…

Quantitative Methods · Quantitative Biology 2020-10-26 Sam Sinai , Eric D Kelsic

Machine learning is a modern approach to problem-solving and task automation. In particular, machine learning is concerned with the development and applications of algorithms that can recognize patterns in data and use them for predictive…

Data science has emerged from the proliferation of digital data, coupled with advances in algorithms, software and hardware (e.g., GPU computing). Innovations in structural biology have been driven by similar factors, spurring us to ask:…

Quantitative Methods · Quantitative Biology 2018-10-03 Cameron Mura , Eli J. Draizen , Philip E. Bourne

Living tissue is able to withstand large stresses in everyday life, yet it also actively adapts to dynamic loads. This remarkable mechanical behaviour emerges from the interplay between living cells and their non-living extracellular…

Biological Physics · Physics 2022-02-02 Iain Muntz , Michele Fenu , Gerjo J. V. M. van Osch , Gijsje H. Koenderink

Digital twins are virtual replicas of physical entities and are poised to transform personalized medicine through the real-time simulation and prediction of human physiology. Translating this paradigm from engineering to biomedicine…

Innovation and entrepreneurship have a very special role to play in creating sustainable development in the world. Engineering design plays a major role in innovation. These are not new facts. However this added to the fact that in current…

Software Engineering · Computer Science 2017-05-26 Amit Kumar Mishra

The goal of this paper is to interactively refine the automatic segmentation on challenging structures that fall behind human performance, either due to the scarcity of available annotations or the difficulty nature of the problem itself,…

Computer Vision and Pattern Recognition · Computer Science 2022-10-28 Wentao Liu , Chaofan Ma , Yuhuan Yang , Weidi Xie , Ya Zhang

The perception of the value and propriety of modern engineered systems is changing. In addition to their functional and extra-functional properties, nowadays' systems are also evaluated by their sustainability properties. The next…

Computers and Society · Computer Science 2024-04-22 Istvan David , Dominik Bork , Gerti Kappel

Developing clinically viable tissue-engineered cardiovascular implants remains a formidable challenge. Achieving reliable and durable outcomes requires a deeper understanding of the fundamental mechanisms driving tissue evolution during in…

Computational Engineering, Finance, and Science · Computer Science 2025-07-29 Mahmoud Sesa , Hagen Holthusen , Christian Böhm , Stefan Jockenhövel , Stefanie Reese , Kevin Linka

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

The International Workshop on Engineering Safety and Security Systems (ESSS) aims at contributing to the challenge of constructing reliable and secure systems. The workshop covers areas such as formal specification, type checking, model…

Software Engineering · Computer Science 2014-05-06 Jun Pang , Yang Liu

Although reproducibility is a core tenet of the scientific method, it remains challenging to reproduce many results. Surprisingly, this also holds true for computational results in domains such as systems biology where there have been…

Quantitative Methods · Quantitative Biology 2021-04-13 Michael L. Blinov , John H. Gennari , Jonathan R. Karr , Ion I. Moraru , David P. Nickerson , Herbert M. Sauro

It is a fact of our existence, that no matter where we are, we most often find ourselves either hearing, seeing, talking, or even engaged in design related activities. Despite this reality, the notion of 'design', and in particular…

Human-Computer Interaction · Computer Science 2013-05-20 Mouhamed Abdulla , Yousef R. Shayan

Scientific discovery evolves from the experimental, through the theoretical and computational, to the current data-intensive paradigm. Materials science is no exception, especially for computational materials science. In recent years, great…

Materials Science · Physics 2018-04-24 Tao Qiang , Honghong Gao

An adequate control of cell response in tissue engineering applications is of utmost importance to obtain products suitable to clinical practice. This paper is the first part of a series of two connected publications in which we study via…

Tissues and Organs · Quantitative Biology 2015-12-08 Chiara Lelli , Riccardo Sacco , Paola Causin , Manuela T. Raimondi

Within the rapidly diversifying field of computational science and engineering (CSE), research software engineers (RSEs) represent a shift towards the adoption of mainstream software engineering tools and practices into scientific software…

Software Engineering · Computer Science 2022-01-12 Miranda Mundt , Reed Milewicz

Redundancy is a fundamental characteristic of many biological processes such as those in the genetic, visual, muscular and nervous system; yet its function has not been fully understood. The conventional interpretation of redundancy is that…

Information Theory · Computer Science 2019-02-04 Anh Tuan Nguyen , Jian Xu , Diu Khue Luu , Qi Zhao , Zhi Yang

This paper describes an optimisation methodology that has been specifically developed for engineering design problems. The methodology is based on a Tabu search (TS) algorithm that has been shown to find high quality solutions with a…

Optimization and Control · Mathematics 2016-06-21 Andy M. Connor , P. John Clarkson , Shahrokh Shahpar , Paul Leonard

Remodelling of biological tissue, due to changes in microstructure, is treated in the continuum mechanical setting. Microstructural change is expressed as an evolution of the reference configuration. This evolution is expressed as a…

Quantitative Methods · Quantitative Biology 2007-05-23 K. Garikipati , H. Narayanan , E. M. Arruda , K. Grosh , S. Calve
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