[
  {
    "phenotype_id": "PH943",
    "phenotype_version_id": 2121,
    "name": "COVID-19",
    "definition": "\n\n\n\n\n\n\n\n",
    "implementation": "",
    "publications": [
      {
        "doi": "10.1136/bmj.n826",
        "details": "Angela Wood, Rachel Denholm, Sam Hollings, Jennifer Cooper, Samantha Ip,Venexia Walker, Spiros Denaxas, Ashley Akbari, Amitava Banerjee, William Whiteley, Alvina Lai, Jonathan Sterne, Cathie Sudlow, CVD-COVID-UK consortium. Linked electronic health records for research on a nationwide cohort of more than 54 million people in England data resource BMJ 2021; 373 :n826 doi:10.1136/bmj.n826 https://www.bmj.com/content/373/bmj.n826",
        "primary": true
      }
    ],
    "validation": "",
    "citation_requirements": "",
    "created": "2022-05-09T07:55:45.894559Z",
    "author": "Angela Wood, Rachel Denholm, Sam Hollings, Jennifer Cooper, Samantha Ip, Venexia Walker, Spiros Denaxas, Ashley Akbari, Amitava Banerjee, William Whiteley, Alvina Lai, Jonathan Sterne, Cathie Sudlow, CVD-COVID-UK consortium",
    "collections": [
      {
        "name": "BHF Data Science Centre",
        "value": 20
      },
      {
        "name": "Phenotype Library",
        "value": 18
      }
    ],
    "tags": null,
    "organisation": {
      "id": 13,
      "slug": "bhf-data-science-centre",
      "name": "BHF Data Science Centre"
    },
    "world_access": 1,
    "updated": "2022-05-17T21:15:56.032909Z",
    "sex": [
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        "name": "Both",
        "value": "3"
      }
    ],
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      {
        "name": "Disease or syndrome",
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      }
    ],
    "trials": null,
    "ontology": null,
    "phenoflowid": "",
    "data_sources": [
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        "url": "https://healthdatagateway.org/en/dataset/1379",
        "datasource_id": 1379
      },
      {
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      },
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      },
      {
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      }
    ],
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      },
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        "value": 9
      }
    ],
    "corresp_author": null,
    "event_date_range": "31/01/2020 - 31/10/2020",
    "concept_information": [
      {
        "concept_id": 2722,
        "concept_version_id": 7243,
        "concept_name": "CCU000 COVID-19 - Phenotypes - England hospitalization EHR: COVID-19 diagnosis",
        "coding_system": {
          "id": 4,
          "name": "ICD10 codes",
          "description": "ICD10 Codes"
        },
        "phenotype_id": "PH943",
        "phenotype_version_id": 2121,
        "phenotype_name": "COVID-19",
        "code_attribute_header": [
          "type"
        ],
        "codes": [
          {
            "code": "U071",
            "description": "COVID-19, virus identified",
            "attributes": {
              "type": "1"
            }
          },
          {
            "code": "U072",
            "description": "COVID-19, virus not identified",
            "attributes": {
              "type": "1"
            }
          }
        ]
      },
      {
        "concept_id": 2723,
        "concept_version_id": 7244,
        "concept_name": "CCU000 COVID-19 - Phenotypes - England primary care EHR: COVID-19 diagnosis",
        "coding_system": {
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          "name": "SNOMED  CT codes",
          "description": "SNOMED CT codes"
        },
        "phenotype_id": "PH943",
        "phenotype_version_id": 2121,
        "phenotype_name": "COVID-19",
        "code_attribute_header": [
          "type",
          "flag"
        ],
        "codes": [
          {
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            "description": "Coronavirus ribonucleic acid detection assay (observable entity)",
            "attributes": {
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              "flag": "Lab confirmed incidence"
            }
          },
          {
            "code": "1029481000000103",
            "description": "Coronavirus nucleic acid detection assay (observable entity)",
            "attributes": {
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              "flag": "Lab confirmed incidence"
            }
          },
          {
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          },
          {
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            }
          },
          {
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            "description": "Severe acute respiratory syndrome coronavirus 2 (organism)",
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              "flag": "Clinically confirmed"
            }
          },
          {
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            "description": "Antigen of severe acute respiratory syndrome coronavirus 2 (substance)",
            "attributes": {
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              "flag": "Lab confirmed incidence"
            }
          },
          {
            "code": "1240401000000105",
            "description": "Antibody to severe acute respiratory syndrome coronavirus 2 (substance)",
            "attributes": {
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              "flag": "Lab confirmed historic"
            }
          },
          {
            "code": "1240411000000107",
            "description": "Ribonucleic acid of severe acute respiratory syndrome coronavirus 2 (substance)",
            "attributes": {
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              "flag": "Lab confirmed incidence"
            }
          },
          {
            "code": "1240421000000101",
            "description": "Serotype severe acute respiratory syndrome coronavirus 2 (qualifier value)",
            "attributes": {
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              "flag": "Lab confirmed historic"
            }
          },
          {
            "code": "1240511000000106",
            "description": "Detection of severe acute respiratory syndrome coronavirus 2 using polymerase chain reaction technique (procedure)",
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              "flag": "Lab confirmed incidence"
            }
          },
          {
            "code": "1240521000000100",
            "description": "Otitis media caused by severe acute respiratory syndrome coronavirus 2 (disorder)",
            "attributes": {
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              "flag": "Clinically confirmed"
            }
          },
          {
            "code": "1240531000000103",
            "description": "Myocarditis caused by severe acute respiratory syndrome coronavirus 2 (disorder)",
            "attributes": {
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              "flag": "Clinically confirmed"
            }
          },
          {
            "code": "1240541000000107",
            "description": "Infection of upper respiratory tract caused by severe acute respiratory syndrome coronavirus 2 (disorder)",
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              "flag": "Clinically confirmed"
            }
          },
          {
            "code": "1240551000000105",
            "description": "Pneumonia caused by severe acute respiratory syndrome coronavirus 2 (disorder)",
            "attributes": {
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              "flag": "Clinically confirmed"
            }
          },
          {
            "code": "1240561000000108",
            "description": "Encephalopathy caused by severe acute respiratory syndrome coronavirus 2 (disorder)",
            "attributes": {
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              "flag": "Clinically confirmed"
            }
          },
          {
            "code": "1240571000000101",
            "description": "Gastroenteritis caused by severe acute respiratory syndrome coronavirus 2 (disorder)",
            "attributes": {
              "type": "1",
              "flag": "Clinically confirmed"
            }
          },
          {
            "code": "1240581000000104",
            "description": "Severe acute respiratory syndrome coronavirus 2 ribonucleic acid detected (finding)",
            "attributes": {
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              "flag": "Lab confirmed incidence"
            }
          },
          {
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            "description": "Severe acute respiratory syndrome coronavirus 2 serology (observable entity)",
            "attributes": {
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              "flag": "Lab confirmed historic"
            }
          },
          {
            "code": "1240751000000100",
            "description": "Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 (disorder)",
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              "flag": "Clinically confirmed"
            }
          },
          {
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            "attributes": {
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              "flag": "Clinically confirmed"
            }
          },
          {
            "code": "1300671000000104",
            "description": "Coronavirus disease 19 severity scale (assessment scale)",
            "attributes": {
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              "flag": "Clinically confirmed"
            }
          },
          {
            "code": "1300681000000102",
            "description": "Assessment using coronavirus disease 19 severity scale (procedure)",
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              "flag": "Clinically confirmed"
            }
          },
          {
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            "description": "Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 confirmed by laboratory test (situation)",
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            }
          },
          {
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            "attributes": {
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          },
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          },
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            "description": "Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 procedures simple reference set (foundation metadata concept)",
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          },
          {
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            "description": "Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 health issues simple reference set (foundation metadata concept)",
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            }
          },
          {
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          },
          {
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            "description": "Cardiomyopathy caused by severe acute respiratory syndrome coronavirus 2 (disorder)",
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              "flag": "Clinically confirmed"
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          },
          {
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          },
          {
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    ],
    "status": 2,
    "doi": "https://doi.org/10.48533/r6fk-ty33",
    "is_deleted": null,
    "publish_status": 2,
    "owner": "ieuan.scanlon",
    "template": {
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      "name": "BHF Data Science Centre Phenotype",
      "description": "BHF Data Science Centre Phenotype definitions that describe a list of clinical codes, algorithms using clinical codes, or set of clinical trials. Visit the BHF Data Science Centre website to learn more: https://bhfdatasciencecentre.org",
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    },
    "versions": [
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]