GMrepo

GMrepo provides a curated and consistently annotated repository of human gut metagenomes and amplicons to support comparative and phenotype-linked microbiome analyses.

Key Features:

• Consistent Annotation: GMrepo applies automated analytical toolsets to annotate microbial contents of collected samples consistently across studies.
• Manual Curation: GMrepo performs manual curation of host metadata to ensure accurate and reliable phenotypic information.
• Phenotype Organization: GMrepo organizes samples by associated phenotypes to enable phenotype-centered analyses.
• Comprehensive Metadata Inclusion: GMrepo includes age, sex, country, body-mass-index (BMI), and recent antibiotic usage in sample metadata.
• Precomputed Data Access: GMrepo provides precomputed species/genus relative abundances, prevalence across phenotypes, and pairwise co-occurrence data accessible via programmable interfaces.
• Extensive Sample Collection: GMrepo contains 58,903 human gut samples/runs, including 17,618 metagenomes and 41,285 amplicons from 253 projects covering 92 phenotypes.

Scientific Applications:

• Microbial diversity analysis: Comparative analyses of microbial diversity across individuals, cohorts, and phenotypes.
• Host–microbe interaction studies: Correlation of microbial profiles with host phenotypes and metadata to study host–microbe interactions.
• Phenotype association discovery: Identification of taxa associated with specific health conditions or traits.
• Environmental and clinical factor assessment: Evaluation of demographic factors and recent antibiotic usage on gut microbiota composition.
• Biomarker and translational research: Use of aggregated abundance, prevalence, and co-occurrence data to inform biomarker discovery and translational investigations.

Methodology:

Automated annotation using bioinformatics analytical toolsets combined with manual curation of host metadata.