Related papers: Rough Set Microbiome Characterisation
The so-called gut-brain axis has stimulated extensive research on microbiomes. One focus is to assess the association between certain clinical outcomes and the relative abundances of gut microbes, which can be presented as sub-compositional…
Microbial communities play important roles in the function and maintenance of various biosystems, ranging from human body to the environment. Current methods for analysis of microbial communities are typically based on taxonomic…
Numerous studies have shown that microbial metabolites, which represent the products of bacteria in the human gut, play a key role in shaping cancer risk and response to treatment. However, metabolite data typically contain a large…
New concepts of rough natural number systems, recently introduced by the present author, are used to improve most rough set-theoretical measures in general Rough Set theory (\textsf{RST}) and measures of mutual consistency of multiple…
Human associated microbial communities exert tremendous influence over human health and disease. With modern metagenomic sequencing methods it is possible to follow the relative abundance of microbes in a community over time. These…
Microbiome data are complex in nature, involving high dimensionality, compositionally, zero inflation, and taxonomic hierarchy. Compositional data reside in a simplex that does not admit the standard Euclidean geometry. Most existing…
Large-scale perturbations in the microbiome constitution are strongly correlated, whether as a driver or a consequence, with the health and functioning of human physiology. However, understanding the difference in the microbiome profiles of…
The human microbiome is a complex ecological system, and describing its structure and function under different environmental conditions is important from both basic scientific and medical perspectives. Viewed through a biostatistical lens,…
Our goal is to build robust optimization problems for making decisions based on complex data from the past. In robust optimization (RO) generally, the goal is to create a policy for decision-making that is robust to our uncertainty about…
Microbes can affect processes from food production to human health. Such microbes are not isolated, but rather interact with each other and establish connections with their living environments. Understanding these interactions is essential…
Now a days, data mining and knowledge discovery methods are applied to a variety of enterprise and engineering disciplines to uncover interesting patterns from databases. The study of Sequential patterns is an important data mining problem…
Background: Parkinson's disease remains a major neurodegenerative disorder with high misdiagnosis rates, primarily due to reliance on clinical rating scales. Recent studies have demonstrated a strong association between gut microbiota and…
High throughput sequencing (HTS)-based technology enables identifying and quantifying non-culturable microbial organisms in all environments. Microbial sequences have enhanced our understanding of the human microbiome, the soil and plant…
Quantifying the relation between gut microbiome and body weight can provide insights into personalized strategies for improving digestive health. In this paper, we present an algorithm that predicts weight fluctuations using gut microbiome…
Feature selection is indispensable in microbiome data analysis, but it can be particularly challenging as microbiome data sets are high-dimensional, underdetermined, sparse and compositional. Great efforts have recently been made on…
Many techniques for handling missing data have been proposed in the literature. Most of these techniques are overly complex. This paper explores an imputation technique based on rough set computations. In this paper, characteristic…
In many studies, dimension reduction methods are used to profile participant characteristics. For example, nutrition epidemiologists often use latent class models to characterize dietary patterns. One challenge with such approaches is…
The bacterial microbiome is increasingly being recognised as a key factor in human health, driven in large part by datasets collected using 16S rRNA (ribosomal ribonucleic acid) gene sequencing, which enable cost-effective quantification of…
Many diseases are considered to be closely related to the changes in the gut microbial community, including colorectal cancer (CRC), which is one of the most common cancers in the world. The diagnostic classification and etiological…
In statistics and machine learning, feature selection is the process of picking a subset of relevant attributes for utilizing in a predictive model. Recently, rough set-based feature selection techniques, that employ feature dependency to…