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.
113 curated research findings documented with statistical evidence and biological context.
Efflux pumps constitute 21% of AMR in human gut species but only 1% in aquatic (η²=0.127). Metal resistance constitutes 45% in soil/aquatic but 6% in human gut (η²=0.107). Clinical species have 68% ac...
Cofitness analysis of 801 AMR genes across 28 organisms reveals that AMR cofitness neighborhoods are enriched for flagellar motility (GO:0071973, 5 organisms FDR<0.05), flagellum assembly (GO:0044780,...
Random-effects meta-analysis of 801 AMR genes across 25 organisms shows a pooled fitness shift of +0.086 [+0.074, +0.098] when AMR genes are knocked out — all 25/25 organisms positive. This cost is me...
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...
Does environmental selection shape the distribution of plant growth-promoting (PGP) bacterial genes across the BERDL pangenome (293K genomes, 27K spec...
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.