Phenotype Library | phenotype: Atrial fibrillation

Atrial fibrillation

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

PH36

Version ID

Type

Disease or Syndrome

Data Sources

CPRD GOLD , HES Admitted Patient Care data for CPRD GOLD

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

Collections

CALIBER Phenotype Library

Definition

Use MODIFIED CALIBER 'Atrial fibrillation' phenotyping algorithm:

At the specified date, a patient is considered to have had 'Atrial fibrillation' or flutter IF they meet any of the criteria below 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:

1. Historical & Diagnosed: first recorded AF code indicates monitoring of an existing condition, or reference to a previous AF diagnosis, or a diagnosis code for AF; preference given to the earliest dated record rather than diagnosis source (i.e. no preference for primary versus secondary care).
2. af_gprd: category 1, 2, 3, 4, 5, 6, 7
3. af_hes: category 6

Implementation

PhenoFlow Implementation:

https://kclhi.org/phenoflow/phenotype/download/124

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

CSV

JSON

XML

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C789/2717 Atrial fibrillation - Primary care - Read codes v2

Rows: 23

Code	Description	Disease	Medcode	Category
14AN.00	H/O: atrial fibrillation	Atrial fibrillation	6345	History of atrial fibrillation or flutter (1)
14AR.00	History of atrial flutter	Atrial fibrillation	93460	History of atrial fibrillation or flutter (1)
212R.00	Atrial fibrillation resolved	Atrial fibrillation	28994	History of atrial fibrillation or flutter (1)
3272.00	ECG: atrial fibrillation	Atrial fibrillation	3757	Atrial fibrillation, not otherwise specified (5)
3273.00	ECG: atrial flutter	Atrial fibrillation	6771	Atrial flutter (7)
662S.00	Atrial fibrillation monitoring	Atrial fibrillation	18746	Atrial fibrillation monitoring (2)
6A9..00	Atrial fibrillation annual review	Atrial fibrillation	45773	Atrial fibrillation monitoring (2)
9Os..00	Atrial fibrillation monitoring administration	Atrial fibrillation	57832	Atrial fibrillation monitoring (2)
9Os0.00	Atrial fibrillation monitoring first letter	Atrial fibrillation	90187	Atrial fibrillation monitoring (2)
9Os1.00	Atrial fibrillation monitoring second letter	Atrial fibrillation	90188	Atrial fibrillation monitoring (2)
9Os2.00	Atrial fibrillation monitoring third letter	Atrial fibrillation	90189	Atrial fibrillation monitoring (2)
9Os3.00	Atrial fibrillation monitoring verbal invite	Atrial fibrillation	90190	Atrial fibrillation monitoring (2)
9Os4.00	Atrial fibrillation monitoring telephone invite	Atrial fibrillation	90191	Atrial fibrillation monitoring (2)
9hF..00	Exception reporting: atrial fibrillation quality indicators	Atrial fibrillation	63350	Atrial fibrillation monitoring (2)
9hF1.00	Excepted from atrial fibrillation qual indic: Inform dissent	Atrial fibrillation	39114	Atrial fibrillation monitoring (2)
G573.00	Atrial fibrillation and flutter	Atrial fibrillation	2212	Atrial fibrillation or flutter (6)
G573000	Atrial fibrillation	Atrial fibrillation	1664	Atrial fibrillation, not otherwise specified (5)
G573100	Atrial flutter	Atrial fibrillation	1757	Atrial flutter (7)
G573200	Paroxysmal atrial fibrillation	Atrial fibrillation	1268	Paroxysmal atrial fibrillation (3)
G573300	Non-rheumatic atrial fibrillation	Atrial fibrillation	35127	Atrial fibrillation, not otherwise specified (5)
G573400	Permanent atrial fibrillation	Atrial fibrillation	96277	Persistent or permanent atrial fibrillation (4)
G573500	Persistent atrial fibrillation	Atrial fibrillation	96076	Persistent or permanent atrial fibrillation (4)
G573z00	Atrial fibrillation and flutter NOS	Atrial fibrillation	23437	Atrial fibrillation or flutter (6)

C790/2719 Atrial fibrillation - Primary care - Med codes

Rows: 23

Code	Description	Disease	ReadcodeDescr	Readcode
1268	Paroxysmal atrial fibrillation (3)	Atrial fibrillation	Paroxysmal atrial fibrillation	G573200
1664	Atrial fibrillation, not otherwise specified (5)	Atrial fibrillation	Atrial fibrillation	G573000
1757	Atrial flutter (7)	Atrial fibrillation	Atrial flutter	G573100
18746	Atrial fibrillation monitoring (2)	Atrial fibrillation	Atrial fibrillation monitoring	662S.00
2212	Atrial fibrillation or flutter (6)	Atrial fibrillation	Atrial fibrillation and flutter	G573.00
23437	Atrial fibrillation or flutter (6)	Atrial fibrillation	Atrial fibrillation and flutter NOS	G573z00
28994	History of atrial fibrillation or flutter (1)	Atrial fibrillation	Atrial fibrillation resolved	212R.00
35127	Atrial fibrillation, not otherwise specified (5)	Atrial fibrillation	Non-rheumatic atrial fibrillation	G573300
3757	Atrial fibrillation, not otherwise specified (5)	Atrial fibrillation	ECG: atrial fibrillation	3272.00
39114	Atrial fibrillation monitoring (2)	Atrial fibrillation	Excepted from atrial fibrillation qual indic: Inform dissent	9hF1.00
45773	Atrial fibrillation monitoring (2)	Atrial fibrillation	Atrial fibrillation annual review	6A9..00
57832	Atrial fibrillation monitoring (2)	Atrial fibrillation	Atrial fibrillation monitoring administration	9Os..00
63350	Atrial fibrillation monitoring (2)	Atrial fibrillation	Exception reporting: atrial fibrillation quality indicators	9hF..00
6345	History of atrial fibrillation or flutter (1)	Atrial fibrillation	H/O: atrial fibrillation	14AN.00
6771	Atrial flutter (7)	Atrial fibrillation	ECG: atrial flutter	3273.00
90187	Atrial fibrillation monitoring (2)	Atrial fibrillation	Atrial fibrillation monitoring first letter	9Os0.00
90188	Atrial fibrillation monitoring (2)	Atrial fibrillation	Atrial fibrillation monitoring second letter	9Os1.00
90189	Atrial fibrillation monitoring (2)	Atrial fibrillation	Atrial fibrillation monitoring third letter	9Os2.00
90190	Atrial fibrillation monitoring (2)	Atrial fibrillation	Atrial fibrillation monitoring verbal invite	9Os3.00
90191	Atrial fibrillation monitoring (2)	Atrial fibrillation	Atrial fibrillation monitoring telephone invite	9Os4.00
93460	History of atrial fibrillation or flutter (1)	Atrial fibrillation	History of atrial flutter	14AR.00
96076	Persistent or permanent atrial fibrillation (4)	Atrial fibrillation	Persistent atrial fibrillation	G573500
96277	Persistent or permanent atrial fibrillation (4)	Atrial fibrillation	Permanent atrial fibrillation	G573400

C791/2721 Atrial fibrillation - Secondary care - Diagnoses - ICD10 codes

Rows: 1

Code	Description	Disease	Category
I48	Atrial fibrillation and flutter	Atrial fibrillation	Fibrillation and flutter

API

To Export Phenotype Details:

Format	API
XML	site_root/api/v1/public/phenotypes/PH36/version/72/detail/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH36/version/72/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('PH36', '72', api_client=client)`

To Export Phenotype Code List:

Format	API
XML	site_root/api/v1/public/phenotypes/PH36/version/72/export/codes/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH36/version/72/export/codes/?format=json
CSV	site_root/phenotypes/PH36/version/72/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('PH36', '72', api_client=client)`

Version History

Version ID	Name	Owner	Publish date
72	Atrial fibrillation	ieuan.scanlon	2021-10-06	currently shown