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Primer melting temperature by Wallace's 2-4 rule and the SantaLucia 1998 unified nearest-neighbor model (16 stacking parameters, terminal initiation, salt correction at your primer/[Na+] concentrations), plus GC content and suggested Ta = Tm − 5°C. Derived from Wallace 1979, SantaLucia 1998, Primer3 2012. Primer-screening use only.
Call this tool from your code in three languages.
curl -X POST 'http://127.0.0.1:3003/en/api/tools/pcr-primer-tm' \
-H 'Content-Type: application/json' \
-d '{"sequence":"GTAAAACGACGGCCAGT","method":"nearest-neighbor","primerConcentrationNm":500,"sodiumConcentrationMm":50,"decimalPlaces":1}'Send a POST request with your inputs as JSON. File parameters require a separate upload first.
POST http://127.0.0.1:3003/en/api/tools/pcr-primer-tm| Name | Type | Required | Description |
|---|---|---|---|
| sequence | text | Yes | DNA primer sequence, A/C/G/T only (case-insensitive); 5–60 nt. |
| method | select | Yes | Wallace for a quick short-oligo estimate; nearest-neighbor is the standard for primer design. |
| primerConcentrationNm | number | Yes | Primer strand concentration (nearest-neighbor method only). |
| sodiumConcentrationMm | number | Yes | [Na+] of the reaction buffer (nearest-neighbor method only). |
| decimalPlaces | number |
Add this tool to your Model Context Protocol server so AI agents can list and call it.
Add this block to your MCP client configuration:
{
"mcpServers": {
"elysiatools-pcr-primer-tm": {
"name": "pcr-primer-tm",
"description": "Primer melting temperature by Wallace's 2-4 rule and the SantaLucia 1998 unified nearest-neighbor model (16 stacking parameters, terminal initiation, salt correction at your primer/[Na+] concentrations), plus GC content and suggested Ta = Tm − 5°C. Derived from Wallace 1979, SantaLucia 1998, Primer3 2012. Primer-screening use only.",
"baseUrl": "http://127.0.0.1:3003/mcp/sse?toolId=pcr-primer-tm",
"command": "",
"args": [],
"env": {},
"isActive": true,
"type": "sse"
}
}
}After connecting to the SSE endpoint, list the exposed tools:
{
"jsonrpc": "2.0",
"id": 1,
"method": "tools/list"
}Invoke the tool by its id, passing arguments built from its parameters:
{
"jsonrpc": "2.0",
"id": 2,
"method": "tools/call",
"params": {
"name": "pcr-primer-tm",
"arguments": {
"sequence": "GTAAAACGACGGCCAGT",
"method": "nearest-neighbor",
"primerConcentrationNm": 500,
"sodiumConcentrationMm": 50,
"decimalPlaces": 1
}
}
}| No |
| — |
JSON result
{
"key": {...},
"metadata": {
"key": "value"
},
"error": "Error message (optional)",
"message": "Notification message (optional)"
}Questions or issues? Contact [email protected]