Phenotype Library | phenotype: Secondary malignancy

Secondary malignancy_Liver and intrahepatic bile duct

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

PH294

Version ID

588

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 Secondary malignancy Liver and intrahepatic bile duct 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

Secondary malignancy Liver and intrahepatic bile duct diagnosis or history of diagnosis during a consultation

OR Secondary care

ALL diagnoses of Secondary malignancy Liver and intrahepatic bile duct or history of diagnosis during a hospitalization

Implementation

PhenoFlow Implementation:

https://kclhi.org/phenoflow/phenotype/download/857

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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C1528/4195 Secondary malignancy_Liver and intrahepatic bile duct - Primary care - Read codes v2

Rows: 3

Code	Description	Disease	Medcode	Category
B153.00	Secondary malignant neoplasm of liver	Secondary malignancy_Liver and intrahepatic bile duct	36147.0	Diagnosis of Secondary malignancy_Liver and intrahepatic bile duct
B577.00	Secondary malignant neoplasm of liver	Secondary malignancy_Liver and intrahepatic bile duct	15103.0	Diagnosis of Secondary malignancy_Liver and intrahepatic bile duct
B577.11	Liver metastases	Secondary malignancy_Liver and intrahepatic bile duct	4403.0	Diagnosis of Secondary malignancy_Liver and intrahepatic bile duct

C1529/4197 Secondary malignancy_Liver and intrahepatic bile duct - Primary care - Med codes

Rows: 3

Code	Description	Disease	ReadcodeDescr	Readcode
15103.0	Diagnosis of Secondary malignancy_Liver and intrahepatic bile duct	Secondary malignancy_Liver and intrahepatic bile duct	Secondary malignant neoplasm of liver	B577.00
36147.0	Diagnosis of Secondary malignancy_Liver and intrahepatic bile duct	Secondary malignancy_Liver and intrahepatic bile duct	Secondary malignant neoplasm of liver	B153.00
4403.0	Diagnosis of Secondary malignancy_Liver and intrahepatic bile duct	Secondary malignancy_Liver and intrahepatic bile duct	Liver metastases	B577.11

C1530/4199 Secondary malignancy_Liver and intrahepatic bile duct - Secondary care - Diagnoses - ICD10 codes

Rows: 1

Code	Description	Disease	Category
C78.7	Secondary malignant neoplasm of liver and intrahepatic bile duct	Secondary malignancy_Liver and intrahepatic bile duct	Diagnosis of Secondary malignancy_Liver and intrahepatic bile duct

API

To Export Phenotype Details:

Format	API
XML	site_root/api/v1/public/phenotypes/PH294/version/588/detail/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH294/version/588/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('PH294', '588', api_client=client)`

To Export Phenotype Code List:

Format	API
XML	site_root/api/v1/public/phenotypes/PH294/version/588/export/codes/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH294/version/588/export/codes/?format=json
CSV	site_root/phenotypes/PH294/version/588/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('PH294', '588', api_client=client)`

Version History

Version ID	Name	Owner	Publish date
588	Secondary malignancy_Liver and intrahepatic bile duct	ieuan.scanlon	2021-10-06	currently shown