A generalized Bayesian stochastic block model for microbiome community detection [PDF]
arXiv, 2023 Advances in next-generation sequencing technology have enabled the high-throughput profiling of metagenomes and accelerated the microbiome study. Recently, there has been a rise in quantitative studies that aim to decipher the microbiome co-occurrence network and its underlying community structure based on metagenomic sequence data.
arxiv
Systemic sclerosis is associated with specific alterations in gastrointestinal microbiota in two independent cohorts. [PDF]
, 2017 ObjectiveTo compare faecal microbial composition in patients with systemic sclerosis (SSc) from 2 independent cohorts with controls and to determine whether certain genera are associated with SSc-gastrointestinal tract (GIT) symptoms.DesignAdult patients
Braun, Jonathan +14 more
core +1 more source
Microbiome Intervention Analysis with Transfer Functions and Mirror Statistics [PDF]
arXiv, 2023 Microbiome interventions provide valuable data about microbial ecosystem structure and dynamics. Despite their ubiquity in microbiome research, few rigorous data analysis approaches are available. In this study, we extend transfer function-based intervention analysis to the microbiome setting, drawing from advances in statistical learning and selective
arxiv
From metagenomics to the metagenome: Conceptual change and the rhetoric of translational genomic research [PDF]
, 2009 As the international genomic research community moves from the tool-making efforts of the Human Genome Project into biomedical applications of those tools, new metaphors are being suggested as useful to understanding how our genes work – and for ...
Huss, John Edward, Juengst, Eric Thomas
core +1 more source
Microbiome and its impact on gastrointestinal atopy [PDF]
Allergy, 2016 AbstractThe prevalence of allergic conditions has continuously increased in the last few decades in Westernized countries. A dysbiotic gut microbiome may play an important role in the development of allergic diseases. Genetic, environmental, and dietary factors may alter the commensal microbiota leading to inflammatory dysregulation of homeostasis ...
Jonathan M. Spergel +7 more
openaire +3 more sources
Rough Set Microbiome Characterisation [PDF]
arXiv, 2021 Microbiota profiles measure the structure of microbial communities in a defined environment (known as microbiomes). In the past decade, microbiome research has focused on health applications as a result of which the gut microbiome has been implicated in the development of a broad range of diseases such as obesity, inflammatory bowel disease, and major ...
arxiv
Research gaps in diet and nutrition in inflammatory bowel disease. A topical review by D-ECCO Working Group (Dietitians of ECCO) [PDF]
, 2017 Although the current doctrine of IBD pathogenesis proposes an interaction between environmental factors with gut microbiota in genetically-susceptible individuals, dietary exposures have attracted recent interest and are, at least in part, likely to ...
Allan, Philip +14 more
core +4 more sources
HT-MMIOW: A Hypothesis Test approach for Microbiome Mediation using Inverse Odds Weighting [PDF]
arXiv, 2023 The human microbiome has an important role in determining health. Mediation analyses quantify the contribution of the microbiome in the causal path between exposure and disease; however, current mediation models cannot fully capture the high dimensional, correlated, and compositional nature of microbiome data and do not typically accommodate ...
arxiv
Beneficial modulation of the gut microbiota [PDF]
, 2014 peer-reviewedThe human gut microbiota comprises approximately 100 trillion microbial cells and has a significant effect on many aspects of human physiology including metabolism, nutrient absorption and immune function.
Cotter, Paul D. +3 more
core +1 more source
Inflammatory Bowel Disease Biomarkers of Human Gut Microbiota Selected via Ensemble Feature Selection Methods [PDF]
arXiv, 2020 The tremendous boost in the next generation sequencing and in the omics technologies makes it possible to characterize human gut microbiome (the collective genomes of the microbial community that reside in our gastrointestinal tract). While some of these microorganisms are considered as essential regulators of our immune system, some others can cause ...
arxiv