{
  "$schema": "http://json-schema.org/draft-07/schema#",
  "$id": "https://schema.humancellatlas.org/module/protocol/1.1.0/probe",
  "description": "Information about probes used to detect targets.",
  "additionalProperties": false,
  "required": [
    "probe_label",
    "target_label",
    "assay_type"
  ],
  "title": "Probe",
  "name": "probe",
  "type": "object",
  "properties": {
    "describedBy": {
      "description": "The URL reference to the schema.",
      "type": "string",
      "pattern": "^(http|https)://schema.(.*?)humancellatlas.org/module/protocol/(([0-9]{1,}.[0-9]{1,}.[0-9]{1,})|([a-zA-Z]*?))/probe"
    },
    "schema_version": {
      "description": "The version number of the schema in major.minor.patch format.",
      "type": "string",
      "pattern": "^[0-9]{1,}.[0-9]{1,}.[0-9]{1,}$",
      "example": "4.6.1"
    },
    "probe_label": {
      "description": "The label of a probe used to detect target in this experiment.",
      "type": "string",
      "example": "ACTA1; cFos",
      "user_friendly": "Probe label"
    },
    "probe_sequence": {
      "pattern": "[ATGCUatgcu]+",
      "description": "Sequence of a probe used to detect target.",
      "type": "string",
      "user_friendly": "Probe sequence",
      "guidelines": "Only include transcript-specific hybridization region.",
      "example": "AGGCTATAGCGGAGCTACG; aggctatagcggagctacg"
    },
    "target_name": {
      "description": "The name of the target molecule.",
      "type": "string",
      "example": "ACTA1_exon1; nuclear cFos",
      "user_friendly": "Target name"
    },
    "target_codebook_label": {
      "description": "A label used in the codebook for the target.",
      "type": "string",
      "example": "AKT1; CFOS",
      "user_friendly": "Target label in codebook",
      "guidelines": "Leave blank if experiment did not use codebook."
    },
    "target_label": {
      "description": "An identifier for the target molecule.",
      "type": "string",
      "example": "CHEBI:85345; ENSG00000170345",
      "user_friendly": "Target label",
      "guidelines": "For small molecules this should be from the ChEBI ontology. For gene products this should be a standard gene or gene product identifier from e.g. Ensembl or UniProt."
    },
    "subcellular_structure": {
      "description": "Target subcellular structure.",
      "type": "object",
      "$ref": "https://schema.humancellatlas.org/module/ontology/1.0.4/cellular_component_ontology",
      "user_friendly": "Target subcellular structure",
      "guidelines": "This should be a term from the GO cell component ontology."
    },
    "probe_reagents": {
      "description": "Name of reagents used to construct the probe.",
      "type": "object",
      "$ref": "https://schema.humancellatlas.org/module/process/6.1.0/purchased_reagents",
      "user_friendly": "Probe construction reagents"
    },
    "assay_type": {
      "description": "Type of assay used to detect target.",
      "type": "object",
      "$ref": "https://schema.humancellatlas.org/module/ontology/5.3.4/process_type_ontology",
      "example": "MERFISH; in situ sequencing",
      "user_friendly": "Assay type"
    },
    "fluorophore": {
      "description": "Fluorophore used to detect target.",
      "type": "array",
      "items": {
        "type": "string"
      },
      "example": "Cy5; Alexa 488",
      "user_friendly": "Fluorophore"
    },
    "channel_label": {
      "description": "Channel label used to assay signal.",
      "type": "array",
      "items": {
        "type": "string"
      },
      "example": "1; A",
      "user_friendly": "Channel",
      "guidelines": "Should be the same as in Channel tab."
    }
  }
}