biomodels.model.search
Search the BioModels repository for peer-reviewed mathematical models of biological and biomedical systems. BioModels is the world's primary repository for quantitative kinetic models, hosted by EMBL-EBI. Contains 3,200+ models in SBML format covering signaling pathways, metabolic networks, gene ...
This record as markdown: /tools/io-github-whiteknightonhorse-apibase/biomodels.model.search.md
What biomodels.model.search does on Apibase
AI agents call biomodels.model.search to retrieve information from Apibase without modifying anything. It is typically the context-gathering step in research, monitoring, and reporting workflows, before the agent takes action elsewhere.
| Parameter | Type | Required | Description |
|---|---|---|---|
limit | integer | — | Number of results to return (1–50, default 10) |
query | string | Yes | Keyword to search for biological mathematical models — e.g. "insulin signaling", "circadian clock", "glucose metabolism", "COVID-19". Supports free-text and can |
offset | integer | — | Pagination offset — number of results to skip (default 0) |
curation_status | string | — | Filter by curation status. "CURATED" returns only manually reviewed, peer-validated models from the BioModels curated branch (highest quality). "NON_CURATED" re |
Parameters from the server's own tool schema.
Why biomodels.model.search is rated Low
Tool searches and retrieves public biological model metadata with no data modification or side effects.
From the tool's definition Search the BioModels repository for peer-reviewed mathematical models; returns model accession IDs, names, formats, URLs.
Attacks that exploit this kind of access
The rule that runs biomodels.model.search safely
PolicyLayer is an MCP gateway: it sits between your AI agents and Apibase, and checks every tool call against a rule you set before the call runs. Nothing changes on the server itself. For biomodels.model.search, this is the rule to start with:
biomodels.model.search is read-only, so it stays allowed. Everything else on the server is denied unless you say otherwise.
The button opens the PolicyLayer dashboard: create your workspace, connect Apibase, apply this rule, and every biomodels.model.search call is checked against it from then on.
Questions about biomodels.model.search
Search the BioModels repository for peer-reviewed mathematical models of biological and biomedical systems. BioModels is the world's primary repository for quantitative kinetic models, hosted by EMBL-EBI. Contains 3,200+ models in SBML format covering signaling pathways, metabolic networks, gene regulation, pharmacokinetics, circadian rhythms, disease dynamics (COVID-19, diabetes, cancer), and more. Returns model accession IDs (BIOMD prefix = curated, MODEL prefix = submitted), names, formats, submitter info, and URLs. Filter by curation status to restrict to manually validated models. CC0 Public Domain — European Bioinformatics Institute (EMBL-EBI). It is categorised as a Read tool in the Apibase MCP Server, which means it retrieves data without modifying state.
biomodels.model.search accepts 4 parameters: limit, query, offset, curation_status. Required: query. The full parameter table on this page comes from the server's own tool schema.
Register the Apibase MCP server in PolicyLayer and add a rule for biomodels.model.search: allow, deny, rate-limit, or require approval. Point your MCP client at the PolicyLayer proxy URL and the rule is enforced on every call, before it reaches Apibase. Nothing to install.
biomodels.model.search is a Read tool with low risk. Read-only tools are generally safe to allow by default.
Yes. Add a rate_limit block to the biomodels.model.search rule in your PolicyLayer policy. For example, setting max: 10 and window: 60 limits the tool to 10 calls per minute. Rate limits are tracked per agent session and reset automatically.
Set action: deny in the PolicyLayer policy for biomodels.model.search. The AI agent will receive a policy violation error and cannot call the tool. You can also include a reason field to explain why the tool is blocked.
biomodels.model.search is provided by the Apibase MCP server (apibase-mcp-client). PolicyLayer sits as a proxy in front of this server to enforce policies before tool calls reach the server.
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