Phenotypes > Secondary Malignancy_Lung

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Secondary Malignancy_Lung

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

Type
Disease or Syndrome
ID
PH295
Version ID
590
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
Tags /Collections
CALIBER Phenotype Library

Definition

At the specified date, a patient is defined as having had Secondary Malignancy Lung 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

  1. Secondary Malignancy Lung diagnosis or history of diagnosis during a consultation

OR Secondary care

  1. ALL diagnoses of Secondary Malignancy Lung or history of diagnosis during a hospitalization

Implementation


https://kclhi.org/phenoflow/phenotype/download/859

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

Expand All  /  Collapse All
Rows: 1
Code Description Disease Medcode Category
B570.00 Secondary malignant neoplasm of lung Secondary Malignancy_Lung 4137.0 Diagnosis of Secondary Malignancy_Lung
Rows: 1
Code Description Disease ReadcodeDescr Readcode
4137.0 Diagnosis of Secondary Malignancy_Lung Secondary Malignancy_Lung Secondary malignant neoplasm of lung B570.00
Rows: 1
Code Description Disease Category
C78.0 Secondary malignant neoplasm of lung Secondary Malignancy_Lung Diagnosis of Secondary Malignancy_Lung

API

To Export Phenotype Details:

Format API
XML site_root/api/v1/public/phenotypes/PH295/version/590/detail/?format=xml
JSON site_root/api/v1/public/phenotypes/PH295/version/590/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('PH295', '590', api_client=client)

To Export Phenotype Code List:

Format API
XML site_root/api/v1/public/phenotypes/PH295/version/590/export/codes/?format=xml
JSON site_root/api/v1/public/phenotypes/PH295/version/590/export/codes/?format=json
CSV site_root/phenotypes/PH295/version/590/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('PH295', '590', api_client=client)

Version History

Version
ID		 Name Owner Publish date
590 Secondary Malignancy_Lung ieuan.scanlon 2021-10-06 currently shown

Export - export all codes into a csv file/JSON/XML for the current phenotype version.

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