bc_get_panglaodb_marker_genes

Retrieve marker genes from the PanglaoDB dataset by specifying species, organ, cell type, gene symbol, and sensitivity/specificity thresholds, enabling precise gene analysis for human or mouse studies.

Instructions

Retrieves marker genes from the PanglaoDB dataset based on specified filters.

Args: species: The species ('Hs' for Human or 'Mm' for Mouse). min_sensitivity: Minimum sensitivity score (0-1). min_specificity: Minimum specificity score (0-1). organ: Filter by organ name (case-insensitive). cell_type: Filter by cell type name (case-insensitive). gene_symbol: Filter by gene symbol (case-insensitive).

Returns: A dictionary containing a list of matching marker gene records or an error message.

Input Schema

Name	Required	Description
`cell_type`	No	Filter by cell type (e.g., 'Smooth muscle cells', 'T cells'). Case-insensitive.
`gene_symbol`	No	Filter by gene symbol (e.g., 'MAFB', 'SYNPO'). Case-insensitive.
`min_sensitivity`	No	Minimum sensitivity score (0-1). Applied to species-specific column.
`min_specificity`	No	Minimum specificity score (0-1). Applied to species-specific column.
`organ`	No	Filter by organ (e.g., 'Brain', 'Lung'). Case-insensitive.
`species`	Yes	The species ('Hs' for Human or 'Mm' for Mouse)

Input Schema (JSON Schema)

{
  "properties": {
    "cell_type": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Filter by cell type (e.g., 'Smooth muscle cells', 'T cells'). Case-insensitive.",
      "title": "Cell Type"
    },
    "gene_symbol": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Filter by gene symbol (e.g., 'MAFB', 'SYNPO'). Case-insensitive.",
      "title": "Gene Symbol"
    },
    "min_sensitivity": {
      "anyOf": [
        {
          "maximum": 1,
          "minimum": 0,
          "type": "number"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Minimum sensitivity score (0-1). Applied to species-specific column.",
      "title": "Min Sensitivity"
    },
    "min_specificity": {
      "anyOf": [
        {
          "maximum": 1,
          "minimum": 0,
          "type": "number"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Minimum specificity score (0-1). Applied to species-specific column.",
      "title": "Min Specificity"
    },
    "organ": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Filter by organ (e.g., 'Brain', 'Lung'). Case-insensitive.",
      "title": "Organ"
    },
    "species": {
      "description": "The species ('Hs' for Human or 'Mm' for Mouse)",
      "title": "Species",
      "type": "string"
    }
  },
  "required": [
    "species"
  ],
  "type": "object"
}

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