Related papers: Numerical Representations of Metabolic Systems
The connection between several hyperbolic type metrics is studied in subdomains of the Euclidean space. In particular, a new metric is introduced and compared to the distance ratio metric.
New technologies have enabled the investigation of biology and human health at an unprecedented scale and in multiple dimensions. These dimensions include a myriad of properties describing genome, epigenome, transcriptome, microbiome,…
This paper explores some basic concepts of Biochemical Systems Theory (BST) and Metabolic Control Analysis (MCA), two frameworks developed to understand the behavior of biochemical networks. Initially introduced by Savageau, BST focuses on…
We formally characterize a set of causality-based properties of metabolic networks. This set of properties aims at making precise several notions on the production of metabolites, which are familiar in the biologists' terminology. From a…
Widespread use of the Internet and social networks invokes the generation of big data, which is proving to be useful in a number of applications. To deal with explosively growing amounts of data, data analytics has emerged as a critical…
Metabolomics is the high-throughput study of small molecule metabolites. Besides offering novel biological insights, these data contain unique statistical challenges, the most glaring of which is the many non-ignorable missing metabolite…
1. Animal movement patterns contribute to our understanding of variation in breeding success and survival of individuals, and the implications for population dynamics. 2. Over time, sensor technology for measuring movement patterns has…
We introduce a hierarchical classification of theories that describe systems with fundamentally limited information content. This property is introduced in an operational way and gives rise to the existence of mutually complementary…
Mathematical models are vital to the field of metrology, playing a key role in the derivation of measurement results and the calculation of uncertainties from measurement data, informed by an understanding of the measurement process. These…
Experience in the physical sciences suggests that the only realistic means of understanding complex systems is through the use of mathematical models. Typically, this has come to mean the identification of quantitative models expressed as…
To develop and investigate detailed mathematical models of cellular metabolic processes is one of the primary challenges in systems biology. However, despite considerable advance in the topological analysis of metabolic networks, explicit…
To understand the system-wide organization of metabolism, different lines of study have devised different categorizations of metabolites. The relationship and difference between categories can provide new insights for a more detailed…
This is a lightning introduction to some modern techniques used in the study of the statistical properties of hyperbolic dynamical systems. The emphasis is not in presenting a comprehensive theory but rather in fleshing out the main ideas…
This work is concerned with the identifiability of metabolic parameters from multi-region measurement data in quantitative PET imaging. It shows that, for the frequently used two-tissue compartment model and under reasonable assumptions, it…
This paper focuses on data arising from the field of metabolomics, a rapidly developing area concerned by the analysis of the chemical fingerprints (i.e. the metabolite profile). The metabolite profile is left by specific chemical processes…
Systematic variation is a common issue in metabolomics data analysis. Therefore, different scaling and normalization techniques are used to preprocess the data for metabolomics data analysis. Although several scaling methods are available…
As the twin movements of open science and open source bring an ever greater share of the scientific process into the digital realm, new opportunities arise for the meta-scientific study of science itself, including of data science and…
Exploring the structural topology of genome-based large-scale metabolic network is essential for investigating possible relations between structure and functionality. Visualization would be helpful for obtaining immediate information about…
Hemostasis and thrombosis are often thought as two sides of the same clotting mechanism whereas hemostasis is a natural protective mechanism to prevent bleeding and thrombosis is a blood clot abnormally formulated inside a blood vessel,…
Machine learning has been successfully used in critical domains, such as medicine. However, extracting meaningful insights from biomedical data is often constrained by the lack of their available disease labels. In this research, we…