Investigate Human Microbiome Diversity and Function with Advanced Metagenomics
Leverage Cosmos-Hub for comprehensive human microbiome analysis across multiple body sampling sites, supporting both foundational and translational microbiome research.
Why Human Microbiome Research Matters
The human microbiome plays a crucial role in human health and disease. From gut health to skin conditions, understanding microbial composition, diversity, and function provides valuable insights into disease pathology, health and wellness, diagnostics, therapeutics, and personalized medicine.
Cosmos-Hub enables researchers to explore human microbiome datasets with high resolution and accuracy, empowering studies in areas such as metabolic disorders, infections, immune modulation, and inflammatory bowel disease.
Example Human Microbiome Study Areas Enabled by Cosmos-Hub
Cosmos-Hub’s microbiome analytics platform provides insights into microbiomes across various human body sites. Here are a few applications where the Cosmos-Hub has been deployed:
Gut Microbiome
Mapping relationships between core gut microbes, short chain fatty acids (SCFAs), and host metabolic and inflammatory biomarkers.
Skin Microbiome
Exploring interactions between bacterial, fungal, and viral communities and dermatological health (e.g., atopic dermatitis, acne) ; leveraging strain-level resolution to track specific species like C. acnes and S. aureus
Oral Microbiome
Investigating links between oral taxa and dental/systemic health outcomes.
Vaginal Microbiome
Studying microbiome dynamics related to reproductive health; identifying markers for bacterial vaginosis and infection susceptibility in reproductive age women.
Tumor and Oncobiome
Characterizing intratumoral microbiomes to better understand oncobiome interactions and links to human diseases states.
Small Intestinal and Capsule Sampling
Assessing the small intestinal microbiome through advanced collection methods such as the Nimble capsule to support gastrointestinal health.
Infant and Early Life Microbiome
Analyzing the development and maturation of the infant gut microbiome, effects of feeding mode, HMOs, prebiotic/probiotic supplementation, and their impact on immune programming and GI health
Cosmos-Hub leverages integrative analytics to correlate microbial taxa with metabolomic, proteomic, and host genetic data, facilitating comprehensive mapping of taxa/function/health relationships.
Sample Types in Human Microbiome Research
Cosmos-Hub has been used to analyze every human sample type you can think of over the years but here are some of the more popular ones. Don't see your sample type here? Contact us and we can demo some relevant datasets.
Cosmos-Hub Features & Tools For Human Microbiome Analysis
Cosmos-Hub’s full suite of advanced tools and cloud-based data management solutions help streamline every step of human microbiome profiling and analysis. These features are purpose-built for researchers handling complex microbial datasets, enabling robust, reproducible, and insightful microbiome research from raw data to scientific discovery.
Platform Tools and Applications
Tool/Feature
Role in Microbiome Profiling & Analysis
Statistics Toolbox
Create virtual cohorts from categorical/continuous metadata, run custom analyses, and conduct meta-analysis across studies with just a few clicks.
RITA (AI Assistant)
An AI-powered co-pilot that answers complex questions about microbiome data, reveals scientific insights, and assists with study design and manuscript prep.
CHAMP Human Microbiome Profiler
Sensitive, high-resolution taxonomic and functional profiling for human microbiome datasets.
EMU
Long-read amplicon profiling pipeline for marker genes analysis (e.g., 16S, 18S, ITS) for accurate microbial diversity assessment.
Cosmos-Hub Atlas
Curated global database with 30,000+ public microbiome datasets, enabling comparison, meta-analysis, and new in silico research without sample collection.
Study & Data Management
Integrated dashboard links raw data, metadata, and results; supports team collaboration, data sharing, secure AWS-based storage, and seamless project continuity.
Cosmos-Hub’s intuitive dashboard brings together all project data, enabling teams to share, analyze, and retain momentum regardless of personnel turnover.
With effortless cloud integration, researchers can focus on discovery and data interpretation—not technical and computational barriers. Security and collaboration are cornerstones to the platform's utility for small and large teams, and with Cosmos-Hub Atlas, users gain access to the world’s largest curated sets of reference microbiome data for powerful benchmarking, validation, and expansion of research.
Publications and Success Stories
Cosmos-Hub has been instrumental in numerous studies exploring the healthy microbiome, advancing knowledge of the human microbiome. Key publications, including pioneering work on:
Antibiotic treatment and gut microbiota changes in human populations
Effects of visceral adiposity, obese and lean twins, and metabolic endotoxemia on the human gut microbiota
Dietary interventions, such as functional muffins on gut microbes
Topical therapeutics altering skin microbial diversity in healthy subjects
Gulf War illness and host–microbial co-metabolites in the human ecosystem
Infant formula effects on the human gut symbiont
Further reading available on recent advances in environmental microbiology, genome biology, nature methods for microbiome sequencing, and nucleic acids research:
Antibiotic use in the past 8 years and gut microbiota composition. Baldanzi, G., Larsson, A., Sayols-Baixeras, S., Dekkers, K. F., Hammar, U., Nguyen, D., Graells, T., Ahmad, S., Volpiano, C. G., Meric, G., Järhult, J. D., Tängdén, T., Ludvigsson, J. F., Lind, L., Sundström, J., Michaëlsson, K., Ärnlöv, J., Kennedy, B., Orho-Melander, M., & Fall, T. (2024). medRxiv. https://doi.org/10.1101/2024.10.14.24315441
Effect of topical microencapsulated benzoyl peroxide on the skin microbiome in rosacea: A randomized, double-blind, crossover, vehicle-controlled clinical trial. Nong, Y., Sugarman, J., York, J. P., Levy-Hacham, O., Nadora, D., Mizrahi, R., Galati, A., Gallo, R. L., & Sivamani, R. K. (2024). Journal of Clinical and Aesthetic Dermatology, 17(8), 19-26.
Comparative analysis workflows that leverage your study metadata to create virtual cohorts and analyze them with the latest statistical tools and visualizations.
Popular Features
Interactive charts & visualizations Univariate statistics like LeFSe, Wlicoxon Rank-Sum & PERMANOVA Multivariate statistics like MaAsLin2 & MaAsLin3
Cosmos-Hub's AI Co-Pilot, RITAi, supports the interpretation of results generated in the software by allowing researchers to make queries like when using their favorite GPT.
Popular Features
Publication insights with complete references Species Wizard Support on how to use the Hub
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