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Get Phenotype Overview Grid

get_phenotype_overview
Read-onlyIdempotent

Get a system-level phenotype overview for a mouse marker, with MP terms grouped by top-level systems. Use this grid to identify affected systems, then drill down for details.

Instructions

Return a per-system phenotype overview grid: for each top-level MP system annotated for the marker (adipose tissue, cardiovascular system, renal/urinary system, nervous system, neoplasm, vision/eye, ...), the distinct annotated MP terms rolled up via the MP ontology. Use this for the system-level overview, then get_marker_phenotypes(mp_system=) to drill into one system. SCOPE: built from single-locus, NON-conditional genotypes (MGI_GenePheno); conditional/Cre-driven and multi-genic genotypes are EXCLUDED (see the response 'scope'/'scope_note'), so this grid is NOT a full mirror of the MGI gene page and a system may be absent here while the gene page shows it. Signature: get_phenotype_overview(query).

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
queryYesA mouse marker symbol (current or synonym, case-insensitive), an MGI id (MGI:98968 or 98968), or a human gene symbol / HGNC id for the ortholog.
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Annotations already declare readOnlyHint, openWorldHint, idempotentHint. Description adds valuable context about scope (single-locus, non-conditional genotypes), source (MGI_GenePheno), and potential absence of systems, which goes beyond annotations. No contradiction.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is a single paragraph but well-structured, front-loading the core purpose and then adding usage guidance and scope details. Could be slightly more concise, but no unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given no output schema, description adequately explains what the grid contains (top-level MP systems, distinct MP terms rolled up via ontology) and its limitations. References response fields ('scope'/'scope_note') for further detail. Complete for a single-parameter tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 100% with description for query. Description adds meaning by clarifying that query can be mouse symbol, MGI id, or human gene symbol/HGNC id, which is not explicit in schema. Also mentions case-insensitivity and synonyms.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states 'Return a per-system phenotype overview grid' with specific resource (phenotype overview for marker) and verb ('return'). Distinguishes from sibling tool get_marker_phenotypes by stating it provides system-level overview and then drills into one system.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly says 'Use this for the system-level overview, then get_marker_phenotypes(mp_system=) to drill into one system.' Also specifies exclusion criteria (conditional/Cre-driven, multi-genic genotypes) and notes that not being a full mirror of MGI gene page, providing clear when-to-use and when-not-to-use guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

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