bc_search_pride_projects

Search and filter mass spectrometry proteomics projects in the PRIDE Archive by keywords, organism, instrument, or experiment type to identify datasets for analysis or validation.

Instructions

Search PRIDE Archive projects by various criteria.

This function searches the PRIDE database for mass spectrometry proteomics projects using keywords and filters. Useful for finding relevant datasets for comparative analysis or method validation.

Args: keyword (str, optional): Search keywords for project titles/descriptions. organism_filter (str, optional): Filter by organism name. instrument_filter (str, optional): Filter by mass spectrometer instrument. experiment_type_filter (str, optional): Filter by experimental approach. page_size (int, optional): Number of results (max 100). Defaults to 20. sort_field (str, optional): Sort field. Defaults to "submissionDate". sort_direction (str, optional): Sort direction. Defaults to "DESC".

Returns: dict: Search results with matching PRIDE projects and metadata

Input Schema

Name	Required	Description	Default
`experiment_type_filter`	No	Filter by experiment type (e.g., 'TMT', 'Label-free')
`instrument_filter`	No	Filter by instrument type (e.g., 'Orbitrap', 'LTQ')
`keyword`	No	Search keywords (e.g., 'proteome', 'cancer', 'human')
`organism_filter`	No	Filter by organism (e.g., 'Homo sapiens', 'human')
`page_size`	No	Number of results to return (max 100)
`sort_direction`	No	Sort direction: ASC or DESC	DESC
`sort_field`	No	Field to sort by: submissionDate, publicationDate	submissionDate

Input Schema (JSON Schema)

{
  "properties": {
    "experiment_type_filter": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Filter by experiment type (e.g., 'TMT', 'Label-free')",
      "title": "Experiment Type Filter"
    },
    "instrument_filter": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Filter by instrument type (e.g., 'Orbitrap', 'LTQ')",
      "title": "Instrument Filter"
    },
    "keyword": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Search keywords (e.g., 'proteome', 'cancer', 'human')",
      "title": "Keyword"
    },
    "organism_filter": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Filter by organism (e.g., 'Homo sapiens', 'human')",
      "title": "Organism Filter"
    },
    "page_size": {
      "default": 20,
      "description": "Number of results to return (max 100)",
      "title": "Page Size",
      "type": "integer"
    },
    "sort_direction": {
      "default": "DESC",
      "description": "Sort direction: ASC or DESC",
      "title": "Sort Direction",
      "type": "string"
    },
    "sort_field": {
      "default": "submissionDate",
      "description": "Field to sort by: submissionDate, publicationDate",
      "title": "Sort Field",
      "type": "string"
    }
  },
  "type": "object"
}

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