Related papers: Can Bioinformatics Be Considered as an Experimenta…
Benchmarking, which involves collecting reference datasets and demonstrating method performances, is a requirement for the development of new computational tools, but also becomes a domain of its own to achieve neutral comparisons of…
Statistical mechanics is one of the most powerful and elegant tools in the quantitative sciences. One key virtue of statistical mechanics is that it is designed to examine large systems with many interacting degrees of freedom, providing a…
Many of the current scientific advances in the life sciences have their origin in the intensive use of data for knowledge discovery. In no area this is so clear as in bioinformatics, led by technological breakthroughs in data acquisition…
What makes quantum information science a science? This paper explores the idea that quantum information science may offer a powerful approach to the study of complex quantum systems.
Researchers in the field of biocomputing have, for many years, successfully "harvested and exploited" the natural world for inspiration in developing systems that are robust, adaptable and capable of generating novel and even "creative"…
Replication of scientific experiments is critical to the advance of science. Unfortunately, the discipline of Computer Science has never treated replication seriously, even though computers are very good at doing the same thing over and…
Computational intelligence is broadly defined as biologically-inspired computing. Usually, inspiration is drawn from neural systems. This article shows how to analyze neural systems using information theory to obtain constraints that help…
Theory and empirical science should be in constant dialogue, but often find it hard to understand one another. Here we describe a graduate-level university course we developed to improve matters. The course was designed to help…
In recent years, data science has become an indispensable part of our society. Over time, we have become reliant on this technology because of its opportunity to gain value and new insights from data in any field - business, socializing,…
In the era of big data, transformation of biomedical big data into valuable knowledge has been one of the most important challenges in bioinformatics. Deep learning has advanced rapidly since the early 2000s and now demonstrates…
Machine Science, or Data-driven Research, is a new and interesting scientific methodology that uses advanced computational techniques to identify, retrieve, classify and analyse data in order to generate hypotheses and develop models. In…
This paper aims at providing a survey on the problems that can be easily addressed by cellular automata in bioinformatics. Some of the authors have proposed algorithms for addressing some problems in bioinformatics but the application of…
Nature has found one method of organizing living matter, but maybe other options exist -- not yet discovered -- on how to create life. To study the life "as it could be" is the objective of an interdisciplinary field called Artificial Life…
Molecular simulations and biophysical experiments can be used to provide independent and complementary insights into the molecular origin of biological processes. A particularly useful strategy is to use molecular simulations as a modelling…
What makes quantum information science a science? These notes explore the idea that quantum information science may offer a powerful approach to the study of complex quantum systems. We discuss how to quantify complexity in quantum systems,…
Experimental research methods describe standards to safeguard scientific integrity and reputability. These methods have been extensively integrated into traditional scientific disciplines and studied in the philosophy of science. The field…
The discipline of `theoretical biology' has been developing from its inception several decades ago almost in parallel with the advances in biology, so much so that the latter is often considered to be almost exclusively an empirical…
The relationship between brains and computers is often taken to be merely metaphorical. However, genuine computational systems can be implemented in virtually any media; thus, one can take seriously the view that brains literally compute.…
At the frontier of most areas in science, computer simulations play a central role. The traditional division of natural science into experimental and theoretical investigations is now completely outdated. Instead, theory, simulation, and…
Biological science produces large amounts of data in a variety of formats, which necessitates the use of computational tools to process, integrate, analyse, and glean insights from the data. Researchers who use computational biology tools…