Research Articles
Designing Robust Microbiome Studies: A Comprehensive Guide to Cross-Sectional and Longitudinal Study Validation
This article provides a comprehensive framework for designing and validating cross-sectional and longitudinal microbiome studies, specifically tailored for researchers, scientists, and drug development professionals.
Microbiome Taxonomic Databases Compared: A Practical Guide to Greengenes, SILVA, and RDP for Researchers
This article provides a comprehensive comparison of the major taxonomic databases—Greengenes, SILVA, and RDP—used in microbiome research.
Microbiome Pipeline Reproducibility: A Comprehensive Comparison of DADA2, QIIME2, and MOTHUR for Robust Biomedical Research
Reproducibility in microbiome bioinformatics is paramount for translating microbial signatures into clinical and pharmaceutical applications.
Microbiome Differential Abundance Analysis: A Comprehensive Benchmarking Review for Robust Biomarker Discovery
Differential abundance (DA) analysis is a cornerstone of microbiome research, essential for identifying microbial biomarkers associated with health and disease.
Navigating the Maze: A Researcher's Guide to Validated Microbiome Biomarker Discovery
The translation of microbiome research into clinically actionable biomarkers is fraught with methodological and conceptual challenges.
Beyond the Noise: A Researcher's Guide to Controls for Robust and Reproducible Microbiome Science
This article provides a comprehensive framework for integrating negative and positive controls to enhance the reliability of microbiome research.
Navigating Microbiome Compositional Data Analysis: Overcoming CoDA Challenges for Robust Biomedical Insights
Microbiome sequence data are inherently compositional, with relative abundances constrained by a constant sum, leading to spurious correlations and analytical challenges if ignored.
Mastering Cage Effects and Cohousing: A Researcher's Guide to Reproducible Microbiome Animal Studies
This article provides a comprehensive guide for researchers, scientists, and drug development professionals on managing cage effects and implementing cohousing strategies in animal microbiome studies.
Navigating Microbiome DNA Extraction Kit Batch Effects: A Comprehensive Guide for Robust Research and Reproducibility
Variation between batches of DNA extraction kits is a critical, often overlooked, source of technical bias in microbiome studies.
Power Analysis and Sample Size Calculation in Microbiome Studies: A Practical Guide for Researchers
This article provides a comprehensive guide for researchers and drug development professionals on performing statistically sound power and sample size calculations for microbiome studies.