Differential abundance analysis for microbial marker-gene surveys.
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- Record sourced from PubMed, PMID 24076764.
- Also identified by DOI 10.1038/nmeth.2658 and PMC identifier 4010126.
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Abstract
We introduce a methodology to assess differential abundance in sparse high-throughput microbial marker-gene survey data. Our approach, implemented in the metagenomeSeq Bioconductor package, relies on a novel normalization technique and a statistical model that accounts for undersampling-a common feature of large-scale marker-gene studies. Using simulated data and several published microbiota data sets, we show that metagenomeSeq outperforms the tools currently used in this field.
Medical subject headings
- Genetic Markers
- Metagenomics
- Microbiota
- RNA, Ribosomal, 16S