[
  {
    "phenotype_id": "PH302",
    "phenotype_version_id": 604,
    "name": "Bacterial sepsis of newborn",
    "definition": "At the specified date, a patient is defined as having had Bacterial sepsis of newborn IF they meet the criteria for any of the following on or before the specified date. The earliest date on which the individual meets any of the following criteria on or before the specified date is defined as the first event date:\n\n\nPrimary care\n\n\n1. Bacterial sepsis of newborn diagnosis or history of diagnosis during a consultation AND IF the patient is aged < 1y at the first event date\nOR\nSecondary care\n\n\n1. ALL diagnoses of  Bacterial sepsis of newborn or history of diagnosis during a hospitalization AND IF the patient is aged < 1y at the first event date\n\n\n\n\n\n\n\n\n\n\n\n\n",
    "implementation": "",
    "publications": [
      {
        "doi": "10.1016/S2589-7500(19)30012-3",
        "details": "Kuan V., Denaxas S., Gonzalez-Izquierdo A. et al. A chronological map of 308 physical and mental health conditions from 4 million individuals in the National Health Service. The Lancet Digital Health - DOI 10.1016/S2589-7500(19)30012-3"
      }
    ],
    "validation": "",
    "citation_requirements": "",
    "created": "2021-10-06T16:11:51.856324Z",
    "author": "Kuan V, Denaxas S, Gonzalez-Izquierdo A, Direk K, Bhatti O, Husain S, Sutaria S, Hingorani M, Nitsch D, Parisinos C, Lumbers T, Mathur R, Sofat R, Casas JP, Wong I, Hemingway H, Hingorani A",
    "collections": [
      {
        "name": "CALIBER",
        "value": 21
      },
      {
        "name": "Phenotype Library",
        "value": 18
      }
    ],
    "tags": null,
    "organisation": null,
    "world_access": 1,
    "updated": "2021-10-06T16:11:51.856352Z",
    "sex": [
      {
        "name": "Both",
        "value": "3"
      }
    ],
    "type": [
      {
        "name": "Disease or syndrome",
        "value": "2"
      }
    ],
    "ontology": null,
    "phenoflowid": "https://kclhi.org/phenoflow/workflows/github.com/phenoflow/Bacterial-sepsis-of-newborn---4a467010-17be-11ef-9de4-4d4ea830ad16/blob/read-potential-cases-fhir/Bacterial-sepsis-of-newborn.cwl",
    "data_sources": [
      {
        "name": "CPRD GOLD",
        "value": 5,
        "uid": "a29feafa-7bdd-44e9-b977-c9d26425e67f",
        "url": "https://healthdatagateway.org/en/dataset/694",
        "datasource_id": 694
      },
      {
        "name": "HES Admitted Patient Care data for CPRD GOLD",
        "value": 9,
        "uid": "4bcf64a6-f404-4ef4-ae6e-172512ab5f43",
        "url": "https://healthdatagateway.org/en/dataset/674",
        "datasource_id": 674
      }
    ],
    "coding_system": [
      {
        "name": "ICD10 codes",
        "value": 4
      },
      {
        "name": "Read codes v2",
        "value": 5
      },
      {
        "name": "Med codes",
        "value": 8
      }
    ],
    "event_date_range": "01/01/1999 - 01/07/2016",
    "concept_information": [
      {
        "concept_id": 1550,
        "concept_version_id": 4239,
        "concept_name": "Bacterial sepsis of newborn - Primary care",
        "coding_system": {
          "id": 5,
          "name": "Read codes v2",
          "description": "Read codes v2"
        },
        "phenotype_id": "PH302",
        "phenotype_version_id": 604,
        "phenotype_name": "Bacterial sepsis of newborn",
        "code_attribute_header": [
          "Disease",
          "Medcode",
          "Category"
        ],
        "codes": [
          {
            "code": "Q408200",
            "description": "Eschericha coli intra-amniotic fetal infection",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "96711.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q408400",
            "description": "Group A haemolytic streptococcal intra-amniotic infect. NEC",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "39324.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q408500",
            "description": "Group B haemolytic streptococcal intra-amniotic infect. NEC",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "13303.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q408600",
            "description": "Pseudomonas pyocyaneus congenital infection",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "96710.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40A.00",
            "description": "Sepsis of the newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "3613.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40A000",
            "description": "Sepsis of newborn due to Staphylococcus aureus",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "39691.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40A100",
            "description": "Sepsis of newborn due to Escherichia coli",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "56336.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40A200",
            "description": "Sepsis of newborn due to anaerobes",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "110079.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40A300",
            "description": "Perinatal coagulase negative staphylococcus",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "60617.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40W.00",
            "description": "Sepsis of newborn due to other+unspecified streptococci",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "47693.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40y.00",
            "description": "Other specified perinatal infection",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "68665.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40y000",
            "description": "Intrauterine fetal sepsis, unspecified",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "67438.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40y011",
            "description": "Congenital sepsis NOS",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "55606.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40y012",
            "description": "Congenital septicaemia",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "99123.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40y100",
            "description": "Neonatal urinary tract infection",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "6097.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40y200",
            "description": "Septicaemia of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "22031.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40yz00",
            "description": "Other specified perinatal infection NOS",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "66780.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Q40z.00",
            "description": "Perinatal infections NOS",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "54637.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Qyu4100",
            "description": "[X]Sepsis/newborn due to other+unspecified staphylococcus",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "98669.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Qyu4200",
            "description": "[X]Other bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "93976.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          },
          {
            "code": "Qyu4800",
            "description": "[X]Sepsis of newborn due to other+unspecified streptococci",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Medcode": "98366.0",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          }
        ]
      },
      {
        "concept_id": 1551,
        "concept_version_id": 4241,
        "concept_name": "Bacterial sepsis of newborn - Primary care",
        "coding_system": {
          "id": 8,
          "name": "Med codes",
          "description": "Med codes"
        },
        "phenotype_id": "PH302",
        "phenotype_version_id": 604,
        "phenotype_name": "Bacterial sepsis of newborn",
        "code_attribute_header": [
          "Disease",
          "ReadcodeDescr",
          "Readcode"
        ],
        "codes": [
          {
            "code": "110079.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Sepsis of newborn due to anaerobes",
              "Readcode": "Q40A200"
            }
          },
          {
            "code": "13303.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Group B haemolytic streptococcal intra-amniotic infect. NEC",
              "Readcode": "Q408500"
            }
          },
          {
            "code": "22031.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Septicaemia of newborn",
              "Readcode": "Q40y200"
            }
          },
          {
            "code": "3613.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Sepsis of the newborn",
              "Readcode": "Q40A.00"
            }
          },
          {
            "code": "39324.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Group A haemolytic streptococcal intra-amniotic infect. NEC",
              "Readcode": "Q408400"
            }
          },
          {
            "code": "39691.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Sepsis of newborn due to Staphylococcus aureus",
              "Readcode": "Q40A000"
            }
          },
          {
            "code": "47693.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Sepsis of newborn due to other+unspecified streptococci",
              "Readcode": "Q40W.00"
            }
          },
          {
            "code": "54637.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Perinatal infections NOS",
              "Readcode": "Q40z.00"
            }
          },
          {
            "code": "55606.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Congenital sepsis NOS",
              "Readcode": "Q40y011"
            }
          },
          {
            "code": "56336.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Sepsis of newborn due to Escherichia coli",
              "Readcode": "Q40A100"
            }
          },
          {
            "code": "60617.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Perinatal coagulase negative staphylococcus",
              "Readcode": "Q40A300"
            }
          },
          {
            "code": "6097.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Neonatal urinary tract infection",
              "Readcode": "Q40y100"
            }
          },
          {
            "code": "66780.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Other specified perinatal infection NOS",
              "Readcode": "Q40yz00"
            }
          },
          {
            "code": "67438.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Intrauterine fetal sepsis, unspecified",
              "Readcode": "Q40y000"
            }
          },
          {
            "code": "68665.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Other specified perinatal infection",
              "Readcode": "Q40y.00"
            }
          },
          {
            "code": "93976.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "[X]Other bacterial sepsis of newborn",
              "Readcode": "Qyu4200"
            }
          },
          {
            "code": "96710.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Pseudomonas pyocyaneus congenital infection",
              "Readcode": "Q408600"
            }
          },
          {
            "code": "96711.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Eschericha coli intra-amniotic fetal infection",
              "Readcode": "Q408200"
            }
          },
          {
            "code": "98366.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "[X]Sepsis of newborn due to other+unspecified streptococci",
              "Readcode": "Qyu4800"
            }
          },
          {
            "code": "98669.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "[X]Sepsis/newborn due to other+unspecified staphylococcus",
              "Readcode": "Qyu4100"
            }
          },
          {
            "code": "99123.0",
            "description": "Diagnosis of Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "ReadcodeDescr": "Congenital septicaemia",
              "Readcode": "Q40y012"
            }
          }
        ]
      },
      {
        "concept_id": 1552,
        "concept_version_id": 4243,
        "concept_name": "Bacterial sepsis of newborn - Secondary care - Diagnoses",
        "coding_system": {
          "id": 4,
          "name": "ICD10 codes",
          "description": "ICD10 Codes"
        },
        "phenotype_id": "PH302",
        "phenotype_version_id": 604,
        "phenotype_name": "Bacterial sepsis of newborn",
        "code_attribute_header": [
          "Disease",
          "Category"
        ],
        "codes": [
          {
            "code": "P36",
            "description": "Bacterial sepsis of newborn",
            "attributes": {
              "Disease": "Bacterial sepsis of newborn",
              "Category": "Diagnosis of Bacterial sepsis of newborn"
            }
          }
        ]
      }
    ],
    "status": 2,
    "doi": "https://doi.org/10.48533/rks4-p042",
    "is_deleted": null,
    "publish_status": 2,
    "owner": "ieuan.scanlon",
    "template": {
      "id": 1,
      "name": "Clinical-Coded Phenotype",
      "description": "Phenotype definitions that are based on lists of clinical codes, or algorithms using clinical codes.",
      "version_id": 1
    },
    "versions": [
      {
        "version_id": 604,
        "version_name": "Bacterial sepsis of newborn",
        "version_date": "2021-10-06T16:11:51.883812Z",
        "is_published": true,
        "is_latest": true
      }
    ]
  }
]