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Bacterial sepsis of newborn

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

Type
Disease or Syndrome
ID
PH302
Version ID
604
Valid event data range
01/01/1999 - 01/07/2016
Sex
Female, Male
Agreement Date
2019-05-20
Coding system
Read codes v2 ICD10 codes Med codes
Tags /Collections
CALIBER Phenotype Library

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:

Primary care

  1. Bacterial sepsis of newborn diagnosis or history of diagnosis during a consultation AND IF the patient is aged < 1y at the first event date OR Secondary care

  2. 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

Implementation


Publications

  • 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

Clinical Code List

Rows: 21
Code Description Disease Medcode Category
Q408200 Eschericha coli intra-amniotic fetal infection Bacterial sepsis of newborn 96711.0 Diagnosis of Bacterial sepsis of newborn
Q408400 Group A haemolytic streptococcal intra-amniotic infect. NEC Bacterial sepsis of newborn 39324.0 Diagnosis of Bacterial sepsis of newborn
Q408500 Group B haemolytic streptococcal intra-amniotic infect. NEC Bacterial sepsis of newborn 13303.0 Diagnosis of Bacterial sepsis of newborn
Q408600 Pseudomonas pyocyaneus congenital infection Bacterial sepsis of newborn 96710.0 Diagnosis of Bacterial sepsis of newborn
Q40A.00 Sepsis of the newborn Bacterial sepsis of newborn 3613.0 Diagnosis of Bacterial sepsis of newborn
Q40A000 Sepsis of newborn due to Staphylococcus aureus Bacterial sepsis of newborn 39691.0 Diagnosis of Bacterial sepsis of newborn
Q40A100 Sepsis of newborn due to Escherichia coli Bacterial sepsis of newborn 56336.0 Diagnosis of Bacterial sepsis of newborn
Q40A200 Sepsis of newborn due to anaerobes Bacterial sepsis of newborn 110079.0 Diagnosis of Bacterial sepsis of newborn
Q40A300 Perinatal coagulase negative staphylococcus Bacterial sepsis of newborn 60617.0 Diagnosis of Bacterial sepsis of newborn
Q40W.00 Sepsis of newborn due to other+unspecified streptococci Bacterial sepsis of newborn 47693.0 Diagnosis of Bacterial sepsis of newborn
Q40y.00 Other specified perinatal infection Bacterial sepsis of newborn 68665.0 Diagnosis of Bacterial sepsis of newborn
Q40y000 Intrauterine fetal sepsis, unspecified Bacterial sepsis of newborn 67438.0 Diagnosis of Bacterial sepsis of newborn
Q40y011 Congenital sepsis NOS Bacterial sepsis of newborn 55606.0 Diagnosis of Bacterial sepsis of newborn
Q40y012 Congenital septicaemia Bacterial sepsis of newborn 99123.0 Diagnosis of Bacterial sepsis of newborn
Q40y100 Neonatal urinary tract infection Bacterial sepsis of newborn 6097.0 Diagnosis of Bacterial sepsis of newborn
Q40y200 Septicaemia of newborn Bacterial sepsis of newborn 22031.0 Diagnosis of Bacterial sepsis of newborn
Q40yz00 Other specified perinatal infection NOS Bacterial sepsis of newborn 66780.0 Diagnosis of Bacterial sepsis of newborn
Q40z.00 Perinatal infections NOS Bacterial sepsis of newborn 54637.0 Diagnosis of Bacterial sepsis of newborn
Qyu4100 [X]Sepsis/newborn due to other+unspecified staphylococcus Bacterial sepsis of newborn 98669.0 Diagnosis of Bacterial sepsis of newborn
Qyu4200 [X]Other bacterial sepsis of newborn Bacterial sepsis of newborn 93976.0 Diagnosis of Bacterial sepsis of newborn
Qyu4800 [X]Sepsis of newborn due to other+unspecified streptococci Bacterial sepsis of newborn 98366.0 Diagnosis of Bacterial sepsis of newborn
Rows: 21
Code Description Disease ReadcodeDescr Readcode
110079.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Sepsis of newborn due to anaerobes Q40A200
13303.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Group B haemolytic streptococcal intra-amniotic infect. NEC Q408500
22031.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Septicaemia of newborn Q40y200
3613.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Sepsis of the newborn Q40A.00
39324.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Group A haemolytic streptococcal intra-amniotic infect. NEC Q408400
39691.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Sepsis of newborn due to Staphylococcus aureus Q40A000
47693.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Sepsis of newborn due to other+unspecified streptococci Q40W.00
54637.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Perinatal infections NOS Q40z.00
55606.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Congenital sepsis NOS Q40y011
56336.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Sepsis of newborn due to Escherichia coli Q40A100
60617.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Perinatal coagulase negative staphylococcus Q40A300
6097.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Neonatal urinary tract infection Q40y100
66780.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Other specified perinatal infection NOS Q40yz00
67438.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Intrauterine fetal sepsis, unspecified Q40y000
68665.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Other specified perinatal infection Q40y.00
93976.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn [X]Other bacterial sepsis of newborn Qyu4200
96710.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Pseudomonas pyocyaneus congenital infection Q408600
96711.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Eschericha coli intra-amniotic fetal infection Q408200
98366.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn [X]Sepsis of newborn due to other+unspecified streptococci Qyu4800
98669.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn [X]Sepsis/newborn due to other+unspecified staphylococcus Qyu4100
99123.0 Diagnosis of Bacterial sepsis of newborn Bacterial sepsis of newborn Congenital septicaemia Q40y012
Rows: 1
Code Description Disease Category
P36 Bacterial sepsis of newborn Bacterial sepsis of newborn Diagnosis of Bacterial sepsis of newborn

API

To Export Phenotype Details:

Format API
XML site_root/api/v1/public/phenotypes/PH302/version/604/detail/?format=xml
JSON site_root/api/v1/public/phenotypes/PH302/version/604/detail/?format=json
R Package

# Download here

library(ConceptLibraryClient)


# Connect to API

client = connect_to_API(public=TRUE)


# Get details of phenotype

details = get_phenotype_detail_by_version('PH302', '604', api_client=client)

To Export Phenotype Code List:

Format API
XML site_root/api/v1/public/phenotypes/PH302/version/604/export/codes/?format=xml
JSON site_root/api/v1/public/phenotypes/PH302/version/604/export/codes/?format=json
CSV site_root/phenotypes/PH302/version/604/export/codes/
R Package

# Download here

library(ConceptLibraryClient)


# Connect to API

client = connect_to_API(public=TRUE)


# Get codelists of phenotype

codelists = get_phenotype_code_list('PH302', '604', api_client=client)

Version History

Version
ID
Name Owner Publish date
604 Bacterial sepsis of newborn ieuan.scanlon 2021-10-06 currently shown

Export - export all codes into a csv file/JSON/XML for the current phenotype version.

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