Uniprot Proteomes Tools#

Configuration File: uniprot_proteomes_tools.json Tool Type: Local Tools Count: 1

This page contains all tools defined in the uniprot_proteomes_tools.json configuration file.

Available Tools#

UniProt_search_proteomes (Type: BaseRESTTool)#

Search the UniProt Proteome database for complete sets of proteins expressed by organisms. Proteo…

UniProt_search_proteomes tool specification

Tool Information:

  • Name: UniProt_search_proteomes

  • Type: BaseRESTTool

  • Description: Search the UniProt Proteome database for complete sets of proteins expressed by organisms. Proteomes represent the complete set of proteins from a fully sequenced genome. Supports searching by organism name, taxonomy ID, BUSCO completeness, proteome type (reference/representative/redundant), and more. Returns proteome IDs (e.g., UP000005640 for human), gene counts, organism info, and quality metrics. Useful for comparative genomics, finding model organism proteomes, or identifying reference proteomes.

Parameters:

  • query (string) (required) Search query using UniProt query syntax. Examples: ‘organism_name:human’, ‘organism_id:9606’, ‘organism_name:escherichia coli’, ‘proteome_type:1’ (reference), ‘busco:complete>95.0’

  • size (integer) (optional) Number of results to return (default 10, max 500)

Example Usage:

query = {
    "name": "UniProt_search_proteomes",
    "arguments": {
        "query": "example_value"
    }
}
result = tu.run(query)