ArticlePLoS computational biology2021
Multivariable association discovery in population-scale meta-omics studies.
Article in PLoS computational biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1,741 papers.
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Who cites it
1,741 citing papers in PubMed.
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- Gut microbiota responses to isocaloric macronutrient modulation in tissue-specific insulin resistance: a secondary analysis of the PERSonalized glucose Optimization through Nutritional intervention (PERSON) randomized trial.The American journal of clinical nutrition · 2026Trial
- Nutritional Stunting Is Linked to Reduced Oral Microbiome Stability and Reconfigured Microbial Networks in Children: A Pilot Intervention Study.Pathogens (Basel, Switzerland) · 2026Trial
- Testosterone administration partially modulates gut microbiota responses to severe energy deficit.American journal of physiology. Endocrinology and metabolism · 2026Trial
- Effects of Soluble Corn Fiber Consumption on Executive Functions and Gut Microbiota in Middle to Older Age Adults: A Randomized Controlled Crossover Trial.The Journal of nutrition · 2026Trial
- Alcohol consumption and colorectal carcinogenesis: an exploration of the gut microbial pathway as a potential mediator.European journal of nutrition · 2026Trial
- Potential role of the ocular surface microbiome in dry eye: microbial interactions and symptom alleviation.mSystems · 2026Trial
- Type 2 diabetes-associated gut microbial composition and short chain fatty acids differ across the epidemiologic transition in African origin populations.Gut microbes reports · 2027Article
- Dynamic flexibility of the murine gut microbiota during morphine disturbance enables escape from the stable dysbiosis that is associated with addiction-like behavior.Gut microbes · 2026Article
- The role of gut microbiota in chronic intestinal pseudo-obstruction: exploring fecal microbiota transplantation as a treatment option.Gut microbes · 2026Article
- LGTM: Gaussian process modulated neural topic modeling for longitudinal microbiome.Gut microbes · 2026Article
- Immunoglobulin A protease fromGut microbes · 2026Article
- Pre-existing β-lactamase gene diversity is associated with lower risk of ESBL-producing Enterobacterales colonization in patients exposed to ceftriaxone.Gut microbes · 2026Article
- The role of gut microbes in production of aromatic carboxaldehydes.Gut microbes · 2026Article
- Spatial mapping of human colonic niches reveals rapid, mucus-specific microbiota disruption after bowel cleansing.Gut microbes · 2026Article
- Early-life microbiota in the LIMIT cohort: unveiling meconium microbiota types beyond maternal lifestyle.Gut microbes · 2026Article
- Vitamin B6 produced by gut microbiome regulates host behavioral phenotypes through dopaminergic metabolism.Gut microbes · 2026Article
- Article
- Compositional and functional differences of gut microbiome and metabolome inform pathogenesis of cholestatic liver disease.Gut microbes · 2026Article
1,681 more citing papers are in PubMed but not listed here.
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20 authors.
Funding
Abstract
It is challenging to associate features such as human health outcomes, diet, environmental conditions, or other metadata to microbial community measurements, due in part to their quantitative properties. Microbiome multi-omics are typically noisy, sparse (zero-inflated), high-dimensional, extremely non-normal, and often in the form of count or compositional measurements. Here we introduce an optimized combination of novel and established methodology to assess multivariable association of microbial community features with complex metadata in population-scale observational studies. Our approach, MaAsLin 2 (Microbiome Multivariable Associations with Linear Models), uses generalized linear and mixed models to accommodate a wide variety of modern epidemiological studies, including cross-sectional and longitudinal designs, as well as a variety of data types (e.g., counts and relative abundances) with or without covariates and repeated measurements. To construct this method, we conducted a large-scale evaluation of a broad range of scenarios under which straightforward identification of meta-omics associations can be challenging. These simulation studies reveal that MaAsLin 2's linear model preserves statistical power in the presence of repeated measures and multiple covariates, while accounting for the nuances of meta-omics features and controlling false discovery. We also applied MaAsLin 2 to a microbial multi-omics dataset from the Integrative Human Microbiome (HMP2) project which, in addition to reproducing established results, revealed a unique, integrated landscape of inflammatory bowel diseases (IBD) across multiple time points and omics profiles.
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