Individual skill
tooluniverse-model-organism-genetics
Cross-species genetic analysis using model organism databases (MGI mouse, IMPC systematic knockout phenotyping, ZFIN zebrafish, FlyBase fruit fly, WormBase worm, SGD budding yeast plus protein-domain/PTM/literature detail, PomBase fission yeast, RGD rat, GeneNetwork systems-genetics/eQTL panels, HumanMine/MouseMine cross-species data-warehouse search, GBIF taxonomy) plus VEuPathDB for eukaryotic pathogens (Plasmodium, Toxoplasma, fungi, vectors). Maps human genes to orthologs, retrieves phenotype/expression/functional data, assesses gene function conservation, and identifies the best animal model for studying a human gene or disease.
plugin/skills/tooluniverse-model-organism-genetics/SKILL.md
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## COMPUTE, DON'T DESCRIBE
When analysis requires computation (statistics, data processing, scoring, enrichment), write and run Python code via Bash. Don't describe what you would do — execute it and report actual results. Use ToolUniverse tools to retrieve data, then Python (pandas, scipy, statsmodels, matplotlib) to analyze it.
# Model Organism Genetics Pipeline
Map human genes to model organism orthologs and retrieve phenotype, expression, and functional data across six species. Synthesize cross-species evidence to assess gene function conservation and identify the best animal models for studying human genes and diseases.
**Not for**: human variant interpretation (`tooluniverse-variant-analysis`), drug target validation (`tooluniverse-drug-target-validation`), human disease characterization (`tooluniverse-multiomic-disease-characterization`), pathogen outbreak/drug-repurposing intelligence once a VEuPathDB target gene is identified (`tooluniverse-infectious-disease`).
**LOOK UP, DON'T GUESS**: When asked about a species' taxonomy, ecology, or biology, search GBIF/NCBI Taxonomy first. For GBIF: use `GBIF_search_species(query="species name")`, then use the `nubKey` (not `key`) from the result to call `GBIF_get_species(speciesKey=nubKey)` for full taxonomy (kingdom, phylum, class, order, family). The `nubKey` is the GBIF backbone key; the `key` is dataset-specific and often lacks higher taxonomy.
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## Reasoning Principles