ArticlePloS one2021
Comparison of beta diversity measures in clustering the high-dimensional microbial data.
Article in PloS one, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Interplay of the nasal microbiome and epigenome among adolescents.Clinical epigenetics · 2026Article
- Profiling skin microbiota in an underrepresented population: Indonesian children with atopic dermatitis and controls.Frontiers in medicine · 2026Article
- The influence of an environmentally relevant polychlorinated biphenyl mixture on the intestinal microbiota in post-weaning mouse dams.Environmental science and pollution research international · 2026Article
- Gut microbiota profiles in pediatric atopic dermatitis and their relationship with skin microbiota: an Indonesian case-control study.Frontiers in microbiology · 2026Article
- Ramping up the Heat: Induction of Systemic and Pulmonary Immune Responses and Metabolic Adaptations in Mice.bioRxiv : the preprint server for biology · 2025Article
- Seasonal Host Shifts for Legionella Within an Industrial Water-Cooling System.Environmental microbiology reports · 2025Article
- The influence of diet, saliva, and dental history on the oral microbiome in healthy, caries-free Australian adults.Scientific reports · 2025Article
- Pre-exposure of abundant species to disturbance improves resilience in microbial metacommunities.Nature ecology & evolution · 2025Article
- Screening and Functional Prediction of Rumen Microbiota Associated with Methane Emissions in Dairy Cows.Animals : an open access journal from MDPI · 2024Article
- Kinetics and pathways of sub-lithic microbial community (hypolithon) development.Environmental microbiology reports · 2024Article
- Article
- Characterization of Microbial Diversity in Decayed Wood from a Spanish Forest: An Environmental Source of Industrially Relevant Microorganisms.Microorganisms · 2022Article
- Nutrition-wide association study of microbiome diversity and composition in colorectal cancer patients.BMC cancer · 2022Article
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5 authors.
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Abstract
The heterogeneity of disease is a major concern in medical research and is commonly characterized as subtypes with different pathogeneses exhibiting distinct prognoses and treatment effects. The classification of a population into homogeneous subgroups is challenging, especially for complex diseases. Recent studies show that gut microbiome compositions play a vital role in disease development, and it is of great interest to cluster patients according to their microbial profiles. There are a variety of beta diversity measures to quantify the dissimilarity between the compositions of different samples for clustering. However, using different beta diversity measures results in different clusters, and it is difficult to make a choice among them. Considering microbial compositions from 16S rRNA sequencing, which are presented as a high-dimensional vector with a large proportion of extremely small or even zero-valued elements, we set up three simulation experiments to mimic the microbial compositional data and evaluate the performance of different beta diversity measures in clustering. It is shown that the Kullback-Leibler divergence-based beta diversity, including the Jensen-Shannon divergence and its square root, and the hypersphere-based beta diversity, including the Bhattacharyya and Hellinger, can capture compositional changes in low-abundance elements more efficiently and can work stably. Their performance on two real datasets demonstrates the validity of the simulation experiments.
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