Phenotype Library | phenotype: Primary Malignancy

Primary Malignancy_Ovarian

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

PH263

Version ID

526

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 Ovarian 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_Ovarian diagnosis or history of diagnosis during a consultation

OR Secondary care

ALL diagnoses of Primary Malignancy Ovarian or history of diagnosis during a hospitalization

Implementation

PhenoFlow Implementation:

https://kclhi.org/phenoflow/phenotype/download/766

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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C1433/4005 Primary Malignancy_Ovarian - Primary care - Read codes v2

Rows: 7

Code	Description	Disease	Medcode	Category
B440.00	Malignant neoplasm of ovary	Primary Malignancy_Ovarian	7805.0	Diagnosis of Primary Malignancy_Ovarian
B440.11	Cancer of ovary	Primary Malignancy_Ovarian	1986.0	Diagnosis of Primary Malignancy_Ovarian
BB5j200	[M]Endometrioid carcinoma	Primary Malignancy_Ovarian	9447.0	Diagnosis of Primary Malignancy_Ovarian
BB5j500	[M]Endometrioid adenofibroma, malignant	Primary Malignancy_Ovarian	103034.0	Diagnosis of Primary Malignancy_Ovarian
BBQA100	[M]Struma ovarii, malignant	Primary Malignancy_Ovarian	71301.0	Diagnosis of Primary Malignancy_Ovarian
D212000	Anaemia in ovarian carcinoma	Primary Malignancy_Ovarian	48145.0	History of Primary Malignancy_Ovarian
ZV10414	[V]Personal history of malignant neoplasm of ovary	Primary Malignancy_Ovarian	52141.0	History of Primary Malignancy_Ovarian

C1434/4007 Primary Malignancy_Ovarian - Primary care - Med codes

Rows: 7

Code	Description	Disease	ReadcodeDescr	Readcode
103034.0	Diagnosis of Primary Malignancy_Ovarian	Primary Malignancy_Ovarian	[M]Endometrioid adenofibroma, malignant	BB5j500
1986.0	Diagnosis of Primary Malignancy_Ovarian	Primary Malignancy_Ovarian	Cancer of ovary	B440.11
48145.0	History of Primary Malignancy_Ovarian	Primary Malignancy_Ovarian	Anaemia in ovarian carcinoma	D212000
52141.0	History of Primary Malignancy_Ovarian	Primary Malignancy_Ovarian	[V]Personal history of malignant neoplasm of ovary	ZV10414
71301.0	Diagnosis of Primary Malignancy_Ovarian	Primary Malignancy_Ovarian	[M]Struma ovarii, malignant	BBQA100
7805.0	Diagnosis of Primary Malignancy_Ovarian	Primary Malignancy_Ovarian	Malignant neoplasm of ovary	B440.00
9447.0	Diagnosis of Primary Malignancy_Ovarian	Primary Malignancy_Ovarian	[M]Endometrioid carcinoma	BB5j200

C1435/4009 Primary Malignancy_Ovarian - Secondary care - Diagnoses - ICD10 codes

Rows: 1

Code	Description	Disease	Category
C56	Malignant neoplasm of ovary	Primary Malignancy_Ovarian	Diagnosis of Primary Malignancy_Ovarian

API

To Export Phenotype Details:

Format	API
XML	site_root/api/v1/public/phenotypes/PH263/version/526/detail/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH263/version/526/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('PH263', '526', api_client=client)`

To Export Phenotype Code List:

Format	API
XML	site_root/api/v1/public/phenotypes/PH263/version/526/export/codes/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH263/version/526/export/codes/?format=json
CSV	site_root/phenotypes/PH263/version/526/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('PH263', '526', api_client=client)`

Version History

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