Related papers: Applied Category Theory for Genomics -- An Initiat…
We live in a period where bio-informatics is rapidly expanding, a significant quantity of genomic data has been produced as a result of the advancement of high-throughput genome sequencing technology, raising concerns about the costs…
We present a theory of ensemble diversity, explaining the nature of diversity for a wide range of supervised learning scenarios. This challenge has been referred to as the holy grail of ensemble learning, an open research issue for over 30…
Many people are familiar with the physico-chemical properties of gene sequences. In this paper I present a mathematical perspective: how do mathematical principles such as information theory, coding theory, and combinatorics influence the…
Understanding how people represent categories is a core problem in cognitive science. Decades of research have yielded a variety of formal theories of categories, but validating them with naturalistic stimuli is difficult. The challenge is…
We describe our experience implementing a broad category-theory library in Coq. Category theory and computational performance are not usually mentioned in the same breath, but we have needed substantial engineering effort to teach Coq to…
Optimization problems frequently appear in any scientific domain. Most of the times, the corresponding decision problem turns out to be NP-hard, and in these cases genetic algorithms are often used to obtain approximated solutions. However,…
This article describes existing and expected benefits of the "SP theory of intelligence", and some potential applications. The theory aims to simplify and integrate ideas across artificial intelligence, mainstream computing, and human…
The world is full of systems of distributed agents, collaborating and competing in complex ways: firms and workers specialise within economies, neurons adapt their tuning across brain circuits, and species compete and coexist within…
In the natural world, life has found innumerable ways to survive and often thrive. Between and even within species, each individual is in some manner unique, and this diversity lends adaptability and robustness to life. In this work, we aim…
In recent years, the sequencing, assembling and annotation of prokaryotic genomes has become increasingly easy and cheap. Thus it becomes increasingly feasible and interesting to perform comparative genomics analyses of new genomes to those…
The purpose of these notes is to collect in one place some facts on the category of finite totally ordered sets and some related categories. More specifically, we collect some results on them which will be useful for the study of iteratedly…
The ominous warnings of a `data deluge' in the life sciences from high-throughput DNA sequencing data are being supplanted by a second deluge, of cliches bemoaning our collective scientific fate unless we address the genomic data `tsunami'.…
Evolution is the theory that plants and animals today have come from kinds that have existed in the past. Scientists such as Charles Darwin and Alfred Wallace dedicate their life to observe how species interact with their environment, grow,…
A certain amount of category theory is developed in an arbitrary finitely complete category with a factorization system on it, playing the role of the comprehensive factorization system on Cat. Those aspects related to the concepts of…
Our world is ambiguous and this is reflected in the data we use to train our algorithms. This is particularly true when we try to model natural processes where collected data is affected by noisy measurements and differences in measurement…
In the emerging field of DNA storage, data is encoded as DNA sequences and stored. The data is read out again by sequencing the stored DNA. Nanopore sequencing is a new sequencing technology that has many advantages over other methods; in…
Cryptography is the science that secures data and communication over the network by applying mathematics and logic to design strong encryption methods. In the modern era of e-business and e-commerce the protection of confidentiality,…
The development of mathematics has been characterized by the increasing interconnectivity of seemingly separate disciplines. Such interplay has been facilitated by a massive development in formalism; category theory has provided a common…
Adaptivity is a dynamical feature that is omnipresent in nature, socio-economics, and technology. For example, adaptive couplings appear in various real-world systems like the power grid, social, and neural networks, and they form the…
Living things, computers, societies, and even books are part of a grand evolutionary struggle to survive. That struggle shapes nature, nations, religions, art, science, and you. What you think, feel, and do is determined by it. Darwinian…