bc_get_string_similarity_scores

Calculate protein similarity scores using the STRING database. Compare protein pairs across species based on Smith-Waterman bit scores, reporting only significant matches above 50.

Instructions

Get similarity scores between proteins from the STRING database.

The scores represent protein homology based on Smith-Waterman bit scores. Only scores above 50 are reported, and only half of the similarity matrix (since it's symmetric) plus self-hits are returned.

Args: protein_symbol (str): The protein symbol of the first protein (e.g., "TP53"). protein_symbol_comparison (str): The protein symbol of the second protein (e.g., "MKI67"). species (str): The species taxonomy ID (e.g., "9606" for human). Optional.

Returns: list: A list of dictionaries containing protein pairs and their bit scores.

Input Schema

Name	Required	Description
`protein_symbol`	Yes	The protein symbol of the first protein (e.g., 'TP53')
`protein_symbol_comparison`	Yes	The protein symbol of the second protein (e.g., 'MKI67')
`species`	No	The species taxonomy ID (e.g., '9606' for human)

Input Schema (JSON Schema)

{
  "properties": {
    "protein_symbol": {
      "description": "The protein symbol of the first protein (e.g., 'TP53')",
      "title": "Protein Symbol",
      "type": "string"
    },
    "protein_symbol_comparison": {
      "description": "The protein symbol of the second protein (e.g., 'MKI67')",
      "title": "Protein Symbol Comparison",
      "type": "string"
    },
    "species": {
      "default": "",
      "description": "The species taxonomy ID (e.g., '9606' for human)",
      "title": "Species",
      "type": "string"
    }
  },
  "required": [
    "protein_symbol",
    "protein_symbol_comparison"
  ],
  "type": "object"
}

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