An AI co-scientist and research observatory for BERDL-scale microbial discovery — powered by reusable skills, shared memory, and scalable data.
A human-in-the-loop AI research workflow that plans analyses, executes them on BERDL, synthesizes findings with literature context, and captures lessons learned for future projects. Each project produces reusable skills, memory, and data products.
Explore curated data collections across the BERDL lakehouse, browse completed research projects with full reports, and discover findings documented with figures, citations, and reproducible notebooks.
Knowledge compounds across projects. Each analysis adds to a growing base of skills, memory, and discoveries that accelerates future research.
15 reusable tools for querying BERDL, searching literature, synthesizing findings, and more.
Pitfalls, performance tips, and query patterns captured from real analyses to avoid repeating mistakes.
116 curated research findings documented with statistical evidence and biological context.
The SSO 3×3 well grid (~6 m span) shows significant distance-decay (Mantel ρ=0.323, p=0.029) driven by the east-west axis rather than the hillslope gradient. A diagonal corridor of wells (U3-M6-L7) sh...
221 METALS/ICTOC/ISOTOPES/NH3NO2 sample tubes from the SSO Subsurface Observatory campaign are registered in ENIGMA CORAL (`sdt_sample`) but zero `Assay Geochemistry` processes are linked — the analyt...
*Candidatus Nitrosotalea* (archaeal ammonia oxidizer) and *Sideroxydans* (iron oxidizer) co-occur almost perfectly across the 9 SSO wells (ρ=+0.95), concentrated at U3. Both are chemolithotrophs explo...
Does 16S community similarity across the 9 ENIGMA SSO wells (3x3 grid, ~4 m span at Oak Ridge) recapitulate the spatial arrangement in X, Y, and Z? Wh...
Among free-living *Pseudomonas* clades, does the carbon source utilization profile predict the soil ecosystem type from which strains were isolated — ...
Can we build a multi-criterion framework that explains measured *P. aeruginosa* PA14 inhibition from metabolic competition, growth kinetics, and patie...
kbase_ke_pangenome
Pangenome data for 293,059 genomes across 27,690 microbial species derived from GTDB r214. Includes core/accessory gene classification, functional annotations, and ANI relationships.
kescience_fitnessbrowser
Gene fitness data from transposon mutant experiments across 40+ bacterial organisms. Identify essential genes and condition-specific fitness effects.
kbase_genomes
Structural genomics data including contigs, features, and protein sequences from the KBase genome repository.