Phenotype Library | phenotype: Primary Malignancy

Primary Malignancy_Cervical

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

PH253

Version ID

506

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

At the specified date, a patient is defined as having had Primary Malignancy Cervical 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

Primary Malignancy_Cervical diagnosis or history of diagnosis during a consultation

OR Secondary care

ALL diagnoses of Primary Malignancy_Cervical or history of diagnosis during a hospitalization

Implementation

PhenoFlow Implementation:

https://kclhi.org/phenoflow/phenotype/download/738

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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C1403/3945 Primary Malignancy_Cervical - Primary care - Read codes v2

Rows: 14

Code	Description	Disease	Medcode	Category
B41..00	Malignant neoplasm of cervix uteri	Primary Malignancy_Cervical	2747.0	Diagnosis of Primary Malignancy_Cervical
B41..11	Cervical carcinoma (uterus)	Primary Malignancy_Cervical	3230.0	Diagnosis of Primary Malignancy_Cervical
B410.00	Malignant neoplasm of endocervix	Primary Malignancy_Cervical	48820.0	Diagnosis of Primary Malignancy_Cervical
B410000	Malignant neoplasm of endocervical canal	Primary Malignancy_Cervical	57235.0	Diagnosis of Primary Malignancy_Cervical
B410100	Malignant neoplasm of endocervical gland	Primary Malignancy_Cervical	53103.0	Diagnosis of Primary Malignancy_Cervical
B410z00	Malignant neoplasm of endocervix NOS	Primary Malignancy_Cervical	50285.0	Diagnosis of Primary Malignancy_Cervical
B411.00	Malignant neoplasm of exocervix	Primary Malignancy_Cervical	50297.0	Diagnosis of Primary Malignancy_Cervical
B412.00	Malignant neoplasm, overlapping lesion of cervix uteri	Primary Malignancy_Cervical	58094.0	Diagnosis of Primary Malignancy_Cervical
B41y.00	Malignant neoplasm of other site of cervix	Primary Malignancy_Cervical	32955.0	Diagnosis of Primary Malignancy_Cervical
B41y000	Malignant neoplasm of cervical stump	Primary Malignancy_Cervical	95505.0	Diagnosis of Primary Malignancy_Cervical
B41y100	Malignant neoplasm of squamocolumnar junction of cervix	Primary Malignancy_Cervical	57719.0	Diagnosis of Primary Malignancy_Cervical
B41yz00	Malignant neoplasm of other site of cervix NOS	Primary Malignancy_Cervical	43435.0	Diagnosis of Primary Malignancy_Cervical
B41z.00	Malignant neoplasm of cervix uteri NOS	Primary Malignancy_Cervical	28311.0	Diagnosis of Primary Malignancy_Cervical
ZV10411	[V]Personal history of malignant neoplasm of cervix uteri	Primary Malignancy_Cervical	23936.0	History of Primary Malignancy_Cervical

C1404/3947 Primary Malignancy_Cervical - Primary care - Med codes

Rows: 14

Code	Description	Disease	ReadcodeDescr	Readcode
23936.0	History of Primary Malignancy_Cervical	Primary Malignancy_Cervical	[V]Personal history of malignant neoplasm of cervix uteri	ZV10411
2747.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of cervix uteri	B41..00
28311.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of cervix uteri NOS	B41z.00
3230.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Cervical carcinoma (uterus)	B41..11
32955.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of other site of cervix	B41y.00
43435.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of other site of cervix NOS	B41yz00
48820.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of endocervix	B410.00
50285.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of endocervix NOS	B410z00
50297.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of exocervix	B411.00
53103.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of endocervical gland	B410100
57235.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of endocervical canal	B410000
57719.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of squamocolumnar junction of cervix	B41y100
58094.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm, overlapping lesion of cervix uteri	B412.00
95505.0	Diagnosis of Primary Malignancy_Cervical	Primary Malignancy_Cervical	Malignant neoplasm of cervical stump	B41y000

C1405/3949 Primary Malignancy_Cervical - Secondary care - Diagnoses - ICD10 codes

Rows: 1

Code	Description	Disease	Category
C53	Malignant neoplasm of cervix uteri	Primary Malignancy_Cervical	Diagnosis of Primary Malignancy_Cervical

API

To Export Phenotype Details:

Format	API
XML	site_root/api/v1/public/phenotypes/PH253/version/506/detail/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH253/version/506/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('PH253', '506', api_client=client)`

To Export Phenotype Code List:

Format	API
XML	site_root/api/v1/public/phenotypes/PH253/version/506/export/codes/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH253/version/506/export/codes/?format=json
CSV	site_root/phenotypes/PH253/version/506/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('PH253', '506', api_client=client)`

Version History

Version ID	Name	Owner	Publish date
506	Primary Malignancy_Cervical	ieuan.scanlon	2021-10-06	currently shown