Complete Input Data for Replicating OralMicroNHANES Analyses

This dataset contains the full set of input files required to reproduce all analyses from the OralMicroNHANES study. It includes taxonomic reference databases (SILVA 123.1), GOLD functional annotations, raw and transformed NHANES oral microbiome databases, alpha- and beta-diversity data, and processed SQLite data objects used for downstream statistical analysis. Directory contents include: 00_GOLDdb/ — GOLD database extracts and curated subsets used to annotate microbial taxa. 00_nhanes_omp_abundance_db/ — NHANES oral microbiome abundance database (nhanes_031725.sqlite). 00_nhanes_omp_diversity_db/ — Alpha- and beta-diversity matrices and variable lists (Bray–Curtis, UniFrac, etc.). 00_nhanes_omp_transformed_db/ — Processed and normalized NHANES oral microbiome datasets used for microbiome-wide association/regression workflows. 00_silva_123.1/ — SILVA 123.1 reference sequences and taxonomy map used during DADA2 taxonomic assignment. fonts/ — Font files required to render figures exactly as in the manuscript. data_documentation_draft.md — Preliminary documentation file describing data sources and file structure. This upload provides a fully reproducible input dataset for investigators seeking to validate, reproduce, or extend the OralMicroNHANES analyses.