ArticleGenome biology2015
MUSiCC: a marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome.
Article in Genome biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 53 papers.
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Who cites it
53 citing papers in PubMed.
- Fecal Microbiome Composition Does Not Predict Diet-Induced TMAO Production in Healthy Adults.Journal of the American Heart Association · 2021Trial
- Changes in bacterial and metabolic profiles in breastfed infants during dietary transition to solids.Pediatric research · 2026Article
- Article
- Effects of Therapeutic Antibiotic Exposure on the Oropharyngeal and Fecal Microbiota in Infants With Cystic Fibrosis.Pediatric pulmonology · 2025Article
- Revolutionizing colorectal cancer detection: A breakthrough in microbiome data analysis.PloS one · 2025Article
- Dysbiotic signatures and diagnostic potential of gut microbial markers for inflammatory bowel disease in Korean population.Scientific reports · 2024Article
- Metabolomics and Lipidomics Analyses Aid Model Classification of Type 2 Diabetes in Non-Human Primates.Metabolites · 2024Article
- Metagenomic analysis of gut microbiome illuminates the mechanisms and evolution of lignocellulose degradation in mangrove herbivorous crabs.BMC microbiology · 2024Article
- Ecological relevance of flagellar motility in soil bacterial communities.The ISME journal · 2024Article
- Uncovering Microbiome Adaptations in a Full-Scale Biogas Plant: Insights from MAG-Centric Metagenomics and Metaproteomics.Microorganisms · 2023Article
- Data Science and Plant Metabolomics.Metabolites · 2023Review
- Multi-omics in Crohn's disease: New insights from inside.Computational and structural biotechnology journal · 2023Review
- The microbiome's fiber degradation profile and its relationship with the host diet.BMC biology · 2022Article
- Integrating phylogenetic and functional data in microbiome studies.Bioinformatics (Oxford, England) · 2022Article
- A Metagenomic Investigation of Spatial and Temporal Changes in Sewage Microbiomes across a University Campus.mSystems · 2022Article
- Growth promotion and antibiotic induced metabolic shifts in the chicken gut microbiome.Communications biology · 2022Article
- Microbial drivers of methane emissions from unrestored industrial salt ponds.The ISME journal · 2022Article
- Article
- Infants with cystic fibrosis have altered fecal functional capacities with potential clinical and metabolic consequences.BMC microbiology · 2021Observational
- mbImpute: an accurate and robust imputation method for microbiome data.Genome biology · 2021Article
Corrections and comments
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Authors and funding
2 authors.
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Abstract
Functional metagenomic analyses commonly involve a normalization step, where measured levels of genes or pathways are converted into relative abundances. Here, we demonstrate that this normalization scheme introduces marked biases both across and within human microbiome samples, and identify sample- and gene-specific properties that contribute to these biases. We introduce an alternative normalization paradigm, MUSiCC, which combines universal single-copy genes with machine learning methods to correct these biases and to obtain an accurate and biologically meaningful measure of gene abundances. Finally, we demonstrate that MUSiCC significantly improves downstream discovery of functional shifts in the microbiome.MUSiCC is available at http://elbo.gs.washington.edu/software.html .
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