Human Microbiome Compendium

Human Microbiome Compendium provides a standardized, large-scale collection of human gut microbiome sequencing data and integrated metadata for comparative analyses of microbial composition from 16S rRNA gene amplicon and shotgun metagenomic sequencing.

Key Features:

• Extensive dataset: Contains 168,464 publicly available human gut microbiome samples.
• Uniform processing pipeline: All samples are processed with a consistent pipeline to ensure comparability across studies.
• Sequencing data types: Includes relative abundance data derived from 16S rRNA gene amplicon sequencing and shotgun metagenomic sequencing.
• Integrated subject metadata: Pairs demographic, geographic, and technical metadata with relative abundance data for correlation analyses.
• Technical-variable annotation: Records technical factors such as primer choice and DNA extraction methods to enable assessment of technical impacts on observed variation.

Scientific Applications:

• Geographic variation analysis: Enables comparison of microbiome composition across regions, including observed differences between Central and Southern Asia versus Europe and Northern America.
• Predictive modeling: Supports modeling to predict a sample's region of origin from its microbial composition.
• Technical factor evaluation: Facilitates assessment of how primer choice and DNA extraction methods influence microbiome variation.

Methodology:

Publicly available human gut microbiome samples are processed using a uniform pipeline and relative abundance data from amplicon and shotgun metagenomic sequencing are integrated with subject metadata.