ArticleBioinformatics (Oxford, England)2022
Integrative analysis of relative abundance data and presence-absence data of the microbiome using the LDM.
Article in Bioinformatics (Oxford, England), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 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.
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Who cites it
10 citing papers in PubMed.
- Evaluating changes in attractor sets under small network perturbations to infer reliable microbial interaction networks from abundance patterns.Bioinformatics (Oxford, England) · 2025Article
- What is the Difference between Conventional Drinking Water, Potable Reuse Water, and Nonpotable Reuse Water? A Microbiome Perspective.Environmental science & technology · 2024Article
- Education as Risk Factor of Mild Cognitive Impairment: The Link to the Gut Microbiome.The journal of prevention of Alzheimer's disease · 2024Article
- Compositional analysis of microbiome data using the linear decomposition model (LDM).Bioinformatics (Oxford, England) · 2023Article
- Comprehensive microbiome causal mediation analysis using MiMed on user-friendly web interfaces.Biology methods & protocols · 2023Article
- Testing microbiome associations with survival times at both the community and individual taxon levels.PLoS computational biology · 2022Article
- Assembly of root-associated N2O-reducing communities of annual crops is governed by selection for nosZ clade I over clade II.FEMS microbiology ecology · 2022Article
- A rarefaction-without-resampling extension of PERMANOVA for testing presence-absence associations in the microbiome.Bioinformatics (Oxford, England) · 2022Article
- A new approach to testing mediation of the microbiome at both the community and individual taxon levels.Bioinformatics (Oxford, England) · 2022Article
- Association of Gut Microbiota With Fatigue in Black Women With Polycystic Ovary Syndrome.Nursing researchArticle
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
summaryWe previously developed the LDM for testing hypotheses about the microbiome that performs the test at both the community level and the individual taxon level. The LDM can be applied to relative abundance data and presence-absence data separately, which work well when associated taxa are abundant and rare, respectively. Here, we propose LDM-omni3 that combines LDM analyses at the relative abundance and presence-absence data scales, thereby offering optimal power across scenarios with different association mechanisms. The new LDM-omni3 test is available for the wide range of data types and analyses that are supported by the LDM. AVAILABILITY AND IMPLEMENTATION: The LDM-omni3 test has been added to the R package LDM, which is available on GitHub at https://github.com/yijuanhu/LDM. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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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.