157 件 ・ 関連度順
概要と使いどころ
Think and work like an expert Medical Mycologist. Use when a task calls for Medical Mycologist judgment. Reasons from EUCAST/CLSI antifungal susceptibility, culture and MALDI-TOF ID, galactomannan/β-D-glucan assays, and CLSI breakpoints while treating contamination, cryptic species mis-ID, and azole MIC trailing as first-class failure modes.
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Think and work like an expert Ethologist. Use when a task calls for Ethologist judgment. Reasons from Tinbergen's four questions and versioned species vs experimental ethograms; scores with BORIS (Cohen's κ per behavior), Altmann focal/scan budgets, and ARRIVE 2.0/study-plan lab reporting while treating observer expectation, field–lab arena mismatch, habituation, and pseudoreplication as first-class failure modes.
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Think and work like an expert Comparative Medicine Researcher. Use when a task calls for Comparative Medicine Researcher judgment. Reasons from species biology, translational validity, and the 3Rs through model-validity frameworks, IACUC protocols, ARRIVE 2.0 reporting, and FELASA/AALAS health surveillance while treating substrain drift, subclinical colony infection (murine norovirus, pinworm, Mycoplasma), analgesia-pathway confounds, and unstated husbandry variables as first-class failure modes.
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Think and work like an expert Catalysis Scientist. Use when a task calls for Catalysis Scientist judgment. Reasons from active-site structure, turnover frequency, selectivity, and the Sabatier principle through CO/H2 chemisorption site-counting, Weisz-Prater and Mears transport checks, Langmuir-Hinshelwood/Mars-van Krevelen kinetics, and operando DRIFTS/XAS while treating diffusion-limited apparent rates, DRIFTS spectator species, mercury-test false positives for leached Pd, sintering, coking, and selectivity collapse at high conversion as first-class failure modes.
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Think and work like an expert Combinatorialist. Use when a task calls for Combinatorialist judgment. Reasons from labelled vs unlabelled enumeration, EGF/OGF and species, bijective and probabilistic proofs, Turán/Ramsey/extremal bounds, and BIBD/OA design parameters through SageMath/GAP/nauty, OEIS, House of Graphs, and Colbourn–Dinitz tables while treating isomorphism double-counting, parity barriers, and OEIS false matches as first-class failure modes.
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Query the Ensembl REST API for gene/transcript/protein lookup, sequence retrieval, comparative genomics (Compara), variant effect prediction (VEP), regulatory features, and cross-species ortholog/paralog calls. Use when pulling Ensembl-native data (Ensembl Gene IDs, version-pinned releases, archive endpoints for reproducibility), gene/transcript/exon structure with stable IDs, or VEP for variant annotation. Encodes the 15 req/sec rate limit, archive (e110.rest.ensembl.org) for reproducibility, Ensembl divisions (vertebrates / plants / fungi / metazoa / bacteria), and the symbol-vs-ID stability problem.
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Processes environmental DNA metabarcoding data from raw amplicon reads to species occurrence tables using OBITools3, DADA2, and taxonomic assignment against BOLD, MIDORI2, or MitoFish databases. Handles COI, 12S, rbcL, and ITS barcode regions with primer removal, denoising, chimera detection, and contamination filtering via decontam. Includes occupancy modeling (occumb) for detection probability correction. Use when analyzing eDNA from water, soil, or bulk samples for biodiversity monitoring. Not for 16S human microbiome (see microbiome/amplicon-processing).
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Detect sample contamination and cross-species reads using FastQ Screen. Screen reads against multiple reference genomes to identify bacterial, viral, adapter, or sample swap contamination. Use when suspecting cross-contamination or working with samples prone to microbial contamination.
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Assesses genetic health of populations for conservation using effective population size estimation (GONE2 for recent Ne trajectory, NeEstimator for contemporary Ne, Stairway Plot 2 and PSMC for historical Ne), F-statistics (hierfstat), runs of homozygosity (detectRUNS), and genetic diversity metrics. Use when estimating effective population size, detecting inbreeding or bottlenecks, or assessing genetic diversity in threatened species from microsatellite or SNP data.
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Bulk-query Ensembl BioMart (and other BioMart instances) for cross-database ID mapping, gene/transcript/exon coordinates, and ortholog tables. Use when batch-converting Ensembl IDs to other namespaces (HGNC, RefSeq, UniProt, Entrez), pulling gene coordinate tables for thousands of genes, building ortholog wide-tables across species, or replacing slow Ensembl REST loops with one-shot bulk export. Encodes BioMart's XML query format, R biomaRt vs Python pybiomart trade-off, mart-vs-dataset hierarchy, and the URL endpoint that's BioMart-specific (separate from rest.ensembl.org).
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Pull pre-computed ortholog calls from public databases (OrthoDB, Ensembl Compara, OMA browser, eggNOG, PANTHER, KEGG Orthology, HomoloGene) via their REST APIs. Use when orthologs are already curated upstream, when the question is "what is the X ortholog of Y" rather than "how to infer orthology de novo", when batch-mapping gene IDs across species, or when comparing the resources for consensus calls. Encodes confidence-level semantics, 1:1 vs 1:many vs many:many, HomoloGene deprecation, and when to defect to de novo computation.
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Query Ensembl for genomic data. Use when user asks about gene coordinates, genomic sequences, variants, gene structure, exons, transcripts, or species comparison. Triggers on "ensembl", "gene coordinates", "genomic location", "exon", "transcript", "variant location", "rsid", "rs number".
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Naming and classifying organisms through binomial nomenclature, the Linnaean hierarchy, type specimens, and the rules governing taxonomic authority and revision. Covers the structure of a scientific name, the ranks from domain to subspecies, the codes (ICZN, ICN, ICNP), and the modern phylogenetic refinements that reshape the classical system. Use when the task is to place a known organism in its formal hierarchy or to reason about how names change over time.
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Identifying species in the field using dichotomous keys, gestalt recognition, diagnostic features, and habitat context. Covers the working identification protocol from first encounter through confidence-rated record, the vocabulary of field marks, the discipline of negative evidence, and the honest reporting of uncertain IDs. Use when the task is to name a living organism encountered in the field.
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Assessing anthropogenic environmental impacts — pollution pathways, habitat destruction and fragmentation, land-use change, invasive species, overharvest, and extinction debt. Covers environmental impact assessment (EIA) methodology, exposure-effect relationships, population viability analysis, IPAT and ecological footprint frameworks, and strategic environmental assessment. Use when quantifying or forecasting human impacts on ecosystems, designing monitoring programs, or evaluating a proposed intervention against a baseline.
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Polish cut gemstones to final finish using progressive abrasive sequences. Covers pre-polish sanding, polishing compounds, lap selection, and quality assessment for both cabochons and faceted stones. Use when a cabochon or faceted stone has completed cutting and is ready for polishing, selecting the correct compound and lap for a specific species, troubleshooting a polish that will not reach full lustre (orange peel, haze, scratches), or re-polishing a stone with surface wear.
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Cultivate edible and medicinal mushrooms from spawn through fruiting. Covers substrate preparation, inoculation methods, incubation conditions, fruiting chamber management, harvest timing, and successive flushes for oyster, shiitake, lion's mane, and other commonly cultivated species. Use when growing edible mushrooms without the risks of wild foraging, when a reliable supply of fresh culinary or medicinal mushrooms is needed, or when exploring mycelial ecology through hands-on cultivation practice.
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Conduct structured insect behavior observations using sampling protocols, ethogram categories, event recording, interaction logging, environmental context, and summary analysis. Covers focal animal sampling, scan sampling, all-occurrences sampling, and instantaneous sampling methods. Defines a standard insect ethogram with locomotion, feeding, grooming, mating, defense, communication, and rest categories. Includes timestamped event recording, intraspecific and interspecific interaction logging, environmental covariate documentation, and time budget analysis. Use when studying insect behavior for ecological research, documenting behavioral repertoires for a species, observing pollinator activity or predator-prey dynamics, or supporting conservation assessments with behavioral data.
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Identify and safely gather edible and useful wild plants. Covers safety rules and deadly plant recognition, habitat reading, multi-feature identification methodology, the universal edibility test, sustainable harvesting practices, preparation methods, reaction monitoring, and building knowledge with beginner-friendly universal species. Use when supplementing food supply in a wilderness or survival setting, needing medicinal or utility plants, identifying plants around camp for safety, or in long-term scenarios where foraging extends available rations.
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Identify gemstones using optical properties, physical tests, and inclusion analysis. Covers refractive index, specific gravity, pleochroism, spectroscopy indicators, and common simulant detection. Use when identifying an unknown gemstone, verifying a seller's claim about species identity, distinguishing natural stones from simulants or synthetics, building gemological literacy through structured observation, or identifying rough material before cutting to ensure safe handling.
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Collect and preserve insect specimens following museum-grade standards including legal compliance, collection methods, humane dispatch, dry pinning, wet preservation, labeling, storage, and curation. Covers permit requirements, protected species regulations, sweep nets, beating trays, pitfall traps, light traps, Malaise traps, aspirators, ethyl acetate killing jars, freezing, pin placement by order, wing spreading, ethanol preservation for soft-bodied specimens, specimen labeling with locality and date, storage with pest management, and database entry. Use when building a reference collection for taxonomic study, preserving voucher specimens for ecological research, preparing specimens for identification by specialists, or curating an existing collection.
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Turn in vitro potency and animal pharmacokinetics into a defensible human dose projection — the arithmetic that decides whether a compound can reach its target concentration safely. Use this skill for non-compartmental analysis of a concentration-time profile (AUC, Cmax, terminal half-life, clearance, volume of distribution), one- and two-compartment simulation of a dosing regimen, interspecies allometric scaling, human-equivalent dose conversion by body surface area, and the exposure margin between a projected therapeutic concentration and a toxicology no-effect level. Also trigger on non-compartmental analysis, AUC, clearance, volume of distribution, allometric scaling, human equivalent dose, first-in-human, NOAEL, therapeutic index, or exposure margin.
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Use this agent when you need to systematically review existing GO annotations for a gene and make curation decisions based on literature evidence and functional analysis. This agent should be called after seeding the SPECIES/GENE/GENE-ai-review.yaml file, which seeds each annotation with `action: PENDING`; these should all be manually reviewed.
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Use when a task needs the judgment of an Environmental Economist — valuing a non-market environmental good (clean air, a wetland, an endangered species) for a benefit-cost analysis, building a regulatory impact analysis (RIA) for a pollution rule, sizing natural resource damages after a spill or contamination event, or picking a discount rate for a policy with cost and benefit streams decades apart.
日本語の概要は準備中です。原文の説明を表示しています。