ArticleBiometrics2022
A multiview model for relative and absolute microbial abundances.
Article in Biometrics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
11 citing papers in PubMed.
- The dynamic elimination effect of local adjuvant therapy on the periodontal microbiota.Journal of oral microbiology · 2026Article
- Identifying microbial drivers in biological phenotypes with a Bayesian network regression model.Ecology and evolution · 2024Article
- The recovery of the microbial community after plaque removal depends on periodontal health status.NPJ biofilms and microbiomes · 2023Article
- Extracting abundance information from DNA-based data.Molecular ecology resources · 2023Review
- A multiview model for relative and absolute microbial abundances.Biometrics · 2022Article
- Linear and nonlinear correlation estimators unveil undescribed taxa interactions in microbiome data.Nature communications · 2022Article
- The mosquito microbiome includes habitat-specific but rare symbionts.Computational and structural biotechnology journal · 2022Article
- Competition-based screening helps to secure the evolutionary stability of a defensive microbiome.BMC biology · 2021Article
- Assessing the Relationship Between Nitrate-Reducing Capacity of the Oral Microbiome and Systemic Outcomes.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Equivolumetric Protocol Generates Library Sizes Proportional to Total Microbial Load in 16S Amplicon Sequencing.Frontiers in microbiology · 2021Article
- A phylogenetic model for the recruitment of species into microbial communities and application to studies of the human microbiome.The ISME journal · 2020Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
The absolute abundance of bacterial taxa in human host-associated environments plays a critical role in reproductive and gastrointestinal health. However, obtaining the absolute abundance of many bacterial species is typically prohibitively expensive. In contrast, relative abundance data for many species are comparatively cheap and easy to collect (e.g., with universal primers for the 16S rRNA gene). In this paper, we propose a method to jointly model relative abundance data for many taxa and absolute abundance data for a subset of taxa. Our method provides point and interval estimates for the absolute abundance of all taxa. Crucially, our proposal accounts for differences in the efficiency of taxon detection in the relative and absolute abundance data. We show that modeling taxon-specific efficiencies substantially reduces the estimation error for absolute abundance, and controls the coverage of interval estimators. We demonstrate the performance of our proposed method via a simulation study, a study of the effect of HIV acquisition on microbial abundances, and a sensitivity study where we jackknife the taxa with observed absolute abundances.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.