These codes are not intended to be mandatory, but are to be used as a starting point for the identification of pertussis or whooping cough in routine Electronic Health Record (EHR). Each study may differ in the sensitivity and specificity of the coding required.
According to the National Health Service (NHS), whooping cough (also called pertussis) is a bacterial infection of the lungs and breathing tubes. It causes repeated coughing bouts that can last for two to three months or more, and can make babies and young children in particular very ill. The first symptoms of whooping cough are similar to those of a cold, such as a runny nose, red and watery eyes, a sore throat, and a slightly raised temperature. Intense coughing bouts start about a week later.
https://www.nhs.uk/conditions/whooping-cough/
https://www.nhsinform.scot/illnesses-and-conditions/infections-and-poisoning/whooping-cough
According to the National Institute for Health and Care Excellence (NICE) guidelines, Whooping cough, also known as pertussis, is a highly infectious disease caused by the bacterium Bordetella pertussis. It is spread by aerosol droplets released during coughing, and disproportionately affects infants and young children. The incubation period of whooping cough is usually about 7 days, and the person is infectious for 3 weeks after the onset of symptoms.
https://cks.nice.org.uk/topics/whooping-cough/
Not found code search
Publications in 2020-2021 identified in PubMed
Sturkenboom M, Braeye T, van der Aa L, Danieli G, Dodd C, Duarte-Salles T, Emborg HD, Gheorghe M, Kahlert J, Gini R, Huerta-Alvarez C, Martín-Merino E, McGee C, de Lusignan S, Picelli G, Roberto G, Tramontan L, Villa M, Weibel D, Titievsky L. ADVANCE database characterisation and fit for purpose assessment for multi-country studies on the coverage, benefits and risks of pertussis vaccinations. Vaccine. 2020 Dec 22;38 Suppl 2:B8-B21. doi: 10.1016/j.vaccine.2020.01.100. Epub 2020 Feb 12. PMID: 320
Gini R, Dodd CN, Bollaerts K, Bartolini C, Roberto G, Huerta-Alvarez C, Martín-Merino E, Duarte-Salles T, Picelli G, Tramontan L, Danieli G, Correa A, McGee C, Becker BFH, Switzer C, Gandhi-Banga S, Bauwens J, van der Maas NAT, Spiteri G, Sdona E, Weibel D, Sturkenboom M. Quantifying outcome misclassification in multi-database studies: The case study of pertussis in the ADVANCE project. Vaccine. 2020 Dec 22;38 Suppl 2:B56-B64. doi: 10.1016/j.vaccine.2019.07.045. Epub 2019 Oct 31. PMID: 31677950.
Code repositories
ID- 1 - Repository- Manchester ClinicalCodes - Description- Antibiotic prescribing for common infections in UK general practice: variability and drivers - Conditions- Cough/cold - Publication- https://doi.org/10.1093/jac/dkz163 - Clinical codes- Read Version 2
ID- 2 - Repository- HDR UK National Phenomics Resource Project - Description- A chronological map of 308 physical and mental health conditions from 4 million individuals in the English National Health Service - Conditions- Bacterial diseases (excl TB) - Publication- https://doi.org/10.1016/S2589-7500(19)30012-3 - Clinical codes- ICD-10
ID- 3 - Repository- HDR UK National Phenomics Resource Project - Description- A chronological map of 308 physical and mental health conditions from 4 million individuals in the English National Health Service - Conditions- Lower respiratory tract infections - Publication- https://doi.org/10.1016/S2589-7500(19)30012-3 - Clinical codes- ICD-11
ID- 4 - Repository- HDR UK National Phenomics Resource Project - Description- Incidence of Community-Acquired Lower Respiratory Tract Infections and Pneumonia among Older Adults in the United Kingdom: A Population-Based Study - Conditions- Pneumonia - Publication- https://doi.org/10.1371/journal.pone.0075131 - Clinical codes- Read Version 2, SNOMED CT, ICD-10 & ICD-11
Code | Description | BREATHE recommended | Gini et al, 2020 |
---|---|---|---|
65VA. | Notification of whooping cough | Y | Y |
A33z. | Whooping cough due to unspecified organism | Y | Y |
Ayu3A | Whooping cough due to unspecified organism | Y | Y |
H243. | Pneumonia in pertussis | Y | Y |
X70I8 | Bordetella infections | Y | Y |
X76Hf | Whooping cough due to unspecified organism | Y | Y |
XE0Qw | Bordetella infections | Y | Y |
XM00D | Whooping cough-like syndrome | Y | Y |
Code | Description | SNOMED CT Concept ID | SNOMED CT Description ID | Read v2 | BREATHE recommended | Sturkenboom et al, 2020 | Gini et al, 2020 | Becker et al, 2017 | HDR UK National Phenomics Resource Project 4 |
---|---|---|---|---|---|---|---|---|---|
1227543018 | [V]Whooping cough vaccination | 39343008 | 65969010 | ZV03611 | |||||
1229516015 | Whooping cough vaccination | 39343008 | 1229516015 | 655..11 | |||||
286448015 | Whooping cough - other specified organism | 27836007 | 46586010 | A33y.00 | Y | Y | |||
286451010 | Other whooping cough NOS | 27836007 | 46586010 | A33yz00 | Y | Y | |||
286452015 | Whooping cough NOS | 27836007 | 46589015 | A33z.00 | Y | Y | |||
288039014 | [X]Whooping cough due to other Bordetella species | 27836007 | 46586010 | Ayu3900 | Y | Y | |||
2946741000006110 | Infection due to Bordetella pertussis | 27836007 | 46588011 | ||||||
301128017 | Acute bronchiolitis due to respiratory syncytial virus | 195739001 | 301128017 | H061500 | |||||
301362011 | Pneumonia due to respiratory syncytial virus | 195881003 | 301362011 | H201.00 | |||||
3133011000006112 | Whooping cough immunization | 39343008 | 65970011 | ||||||
3133041000006111 | RSV nucleic acid detection | 39343008 | 492037018 | ||||||
317301000006111 | [M]Syncytial meningioma | 68944005 | 114505018 | BBd3.12 | |||||
3208291000006112 | Hodgkin's disease, nodular sclerosis, syncytial variant | 43985008 | 73345016 | ||||||
3621181000006115 | Syncytial meningioma | 68944005 | 114505018 | ||||||
4780491000006118 | Acute respiratory syncytial virus bronchitis | 195727009 | 301115012 | ||||||
4780571000006115 | Acute bronchiolitis caused by respiratory syncytial virus | 195739001 | 3290582012 | ||||||
4781131000006116 | Pneumonia caused by respiratory syncytial virus | 195881003 | 3291454010 | ||||||
689481000000119 | Respiratory syncytial virus A detected | 440929004 | 2791867012 | 4JU9.00 | |||||
689541000000114 | Respiratory syncytial virus B detected | 441048007 | 2794534015 | 4JUA.00 | |||||
689601000000110 | Respiratory syncytial virus untyped strain detected | 441278007 | 2790181019 | 4JUB.00 | |||||
743621000033110 | Pertussis Toxoid | 743621000033106 | 743621000033110 | ||||||
885221000006117 | Whooping cough pneumonia | 59475000 | 885221000006117 | H243.99 | |||||
92677014 | Respiratory syncytial virus infection | 55735004 | 92677014 | A79A.00 | |||||
Not added - 1 | Whooping cough | Not added | Not added | A33.. | Y | Y | |||
Not added - 2 | Bordetella pertussis | Not added | Not added | A330. | Y | Y | Y | ||
Not added - 3 | [X] Whooping cough, unspecified | Not added | Not added | Ayu3A | Y | Y | Y | Y | |
Not added - 4 | Pneumonia with whooping cough | 59475000 | 1230000000 | H243. | Y | Y | Y | Y | Y |
Not added - 5 | Whooping cough-like syndrome | Not added | Not added | XM00D | Y | Y | |||
Not added -6 | Notification of whooping cough | Not added | Not added | 65VA. | Y | Y |
Code | Description | CPRD GOLD Med | BREATHE recommended | Sturkenboom et al, 2020 | Gini et al, 2020 | Becker et al, 2017 | Manchester Clinical Codes 1 | HDR UK National Phenomics Resource Project 4 |
---|---|---|---|---|---|---|---|---|
43jk.00 | RSV nucleic acid detection | 70173 | ||||||
43wE.00 | Bordetella pertussis deoxyribonucleic acid detection | 110596 | ||||||
4JU9.00 | Respiratory syncytial virus A detected | 96556 | ||||||
4JUA.00 | Respiratory syncytial virus B detected | 96323 | ||||||
65VA. | Notification of whooping cough | Y | Y | |||||
A33.. | Whooping cough | Y | Y | Y | ||||
A330. | Bordetella pertussis | Y | Y | Y | ||||
A33y.00 | Whooping cough - other specified organism | 53897 | Y | Y | ||||
A33yz00 | Other whooping cough NOS | 64286 | Y | Y | ||||
A33z.00 | Whooping cough NOS | 42548 | Y | Y | ||||
A79A.00 | Respiratory syncytial virus infection | 12573 | ||||||
A7y0200 | Resp syncytial virus as cause of dis class to other chapters | 24462 | ||||||
Ayu3900 | [X]Whooping cough due to other Bordetella species | 114952 | Y | Y | ||||
Ayu3A | [X] Whooping cough, unspecified | Y | Y | Y | Y | |||
H060D00 | Acute bronchitis due to respiratory syncytial virus | 48593 | ||||||
H061500 | Acute bronchiolitis due to respiratory syncytial virus | 18451 | ||||||
H201.00 | Pneumonia due to respiratory syncytial virus | 31269 | ||||||
H243. | Pneumonia with whooping cough | Y | Y | Y | Y | Y | ||
SLK8.00 | Diptheria,tetanus,pertussis and polio vaccine poisoning | 51676 | ||||||
XM00D | Whooping cough-like syndrome | Y | Y | |||||
ZV03611 | [V]Whooping cough vaccination | 30197 | ||||||
ZV06200 | [V]Diphtheria-tetanus-pertussis + typhoid-paratyphoid vacc | 51652 |
Code | Description |
---|---|
65VA. | Notification of whooping cough |
A33z. | Whooping cough due to unspecified organism |
Ayu3A | Whooping cough due to unspecified organism |
H243. | Pneumonia in pertussis |
X70I8 | Bordetella infections |
X76Hf | Whooping cough due to unspecified organism |
XE0Qw | Bordetella infections |
XM00D | Whooping cough-like syndrome |
Code | Description |
---|---|
286448015 | Whooping cough - other specified organism |
286451010 | Other whooping cough NOS |
286452015 | Whooping cough NOS |
288039014 | [X]Whooping cough due to other Bordetella species |
Not added - 1 | Whooping cough |
Not added - 2 | Bordetella pertussis |
Not added - 3 | [X] Whooping cough, unspecified |
Not added - 4 | Pneumonia with whooping cough |
Not added - 5 | Whooping cough-like syndrome |
Not added -6 | Notification of whooping cough |
Code | Description |
---|---|
65VA. | Notification of whooping cough |
A33.. | Whooping cough |
A330. | Bordetella pertussis |
A33y.00 | Whooping cough - other specified organism |
A33yz00 | Other whooping cough NOS |
A33z.00 | Whooping cough NOS |
Ayu3900 | [X]Whooping cough due to other Bordetella species |
Ayu3A | [X] Whooping cough, unspecified |
H243. | Pneumonia with whooping cough |
XM00D | Whooping cough-like syndrome |
To Export Phenotype Details:
Format | API |
---|---|
XML | site_root/api/v1/public/phenotypes/PH808/version/2232/detail/?format=xml |
JSON | site_root/api/v1/public/phenotypes/PH808/version/2232/detail/?format=json |
R Package |
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To Export Phenotype Code List:
Format | API |
---|---|
XML | site_root/api/v1/public/phenotypes/PH808/version/2232/export/codes/?format=xml |
JSON | site_root/api/v1/public/phenotypes/PH808/version/2232/export/codes/?format=json |
CSV | site_root/phenotypes/PH808/version/2232/export/codes/ |
R Package |
|
Version ID |
Name | Owner | Publish date | |
---|---|---|---|---|
2232 | Pertussis or Whooping cough Primary care | zinnurar | 2022-08-08 | currently shown |
1695 | Pertussis or Whooping cough Primary care | zinnurar | 2022-01-17 |
Export - export all codes into a csv file/JSON/XML for the current phenotype version.
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