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Primary Malignancy_Oesophageal

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
PH260
Version ID
520
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 Primary Malignancy Oesophageal 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. Primary Malignancy_Oesophageal diagnosis or history of diagnosis during a consultation

OR Secondary care

  1. ALL diagnoses of Primary Malignancy_Oesophageal or history of diagnosis during a hospitalization

Implementation


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

Rows: 13
Code Description Disease Medcode Category
B10..00 Malignant neoplasm of oesophagus Primary Malignancy_Oesophageal 1062.0 Diagnosis of Primary Malignancy_Oesophageal
B100.00 Malignant neoplasm of cervical oesophagus Primary Malignancy_Oesophageal 61695.0 Diagnosis of Primary Malignancy_Oesophageal
B101.00 Malignant neoplasm of thoracic oesophagus Primary Malignancy_Oesophageal 41362.0 Diagnosis of Primary Malignancy_Oesophageal
B102.00 Malignant neoplasm of abdominal oesophagus Primary Malignancy_Oesophageal 63470.0 Diagnosis of Primary Malignancy_Oesophageal
B103.00 Malignant neoplasm of upper third of oesophagus Primary Malignancy_Oesophageal 50789.0 Diagnosis of Primary Malignancy_Oesophageal
B104.00 Malignant neoplasm of middle third of oesophagus Primary Malignancy_Oesophageal 54171.0 Diagnosis of Primary Malignancy_Oesophageal
B105.00 Malignant neoplasm of lower third of oesophagus Primary Malignancy_Oesophageal 42416.0 Diagnosis of Primary Malignancy_Oesophageal
B106.00 Malignant neoplasm, overlapping lesion of oesophagus Primary Malignancy_Oesophageal 67497.0 Diagnosis of Primary Malignancy_Oesophageal
B107.00 Siewert type I adenocarcinoma Primary Malignancy_Oesophageal 98142.0 Diagnosis of Primary Malignancy_Oesophageal
B10y.00 Malignant neoplasm of other specified part of oesophagus Primary Malignancy_Oesophageal 53591.0 Diagnosis of Primary Malignancy_Oesophageal
B10z.00 Malignant neoplasm of oesophagus NOS Primary Malignancy_Oesophageal 30700.0 Diagnosis of Primary Malignancy_Oesophageal
B10z.11 Oesophageal cancer Primary Malignancy_Oesophageal 4865.0 Diagnosis of Primary Malignancy_Oesophageal
ZV10016 [V]Personal history of malignant neoplasm of oesophagus Primary Malignancy_Oesophageal 51001.0 History of Primary Malignancy_Oesophageal
Rows: 13
Code Description Disease ReadcodeDescr Readcode
1062.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm of oesophagus B10..00
30700.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm of oesophagus NOS B10z.00
41362.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm of thoracic oesophagus B101.00
42416.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm of lower third of oesophagus B105.00
4865.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Oesophageal cancer B10z.11
50789.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm of upper third of oesophagus B103.00
51001.0 History of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal [V]Personal history of malignant neoplasm of oesophagus ZV10016
53591.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm of other specified part of oesophagus B10y.00
54171.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm of middle third of oesophagus B104.00
61695.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm of cervical oesophagus B100.00
63470.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm of abdominal oesophagus B102.00
67497.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Malignant neoplasm, overlapping lesion of oesophagus B106.00
98142.0 Diagnosis of Primary Malignancy_Oesophageal Primary Malignancy_Oesophageal Siewert type I adenocarcinoma B107.00
Rows: 1
Code Description Disease Category
C15 Malignant neoplasm of oesophagus Primary Malignancy_Oesophageal Diagnosis of Primary Malignancy_Oesophageal

API

To Export Phenotype Details:

Format API
XML site_root/api/v1/public/phenotypes/PH260/version/520/detail/?format=xml
JSON site_root/api/v1/public/phenotypes/PH260/version/520/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('PH260', '520', api_client=client)

To Export Phenotype Code List:

Format API
XML site_root/api/v1/public/phenotypes/PH260/version/520/export/codes/?format=xml
JSON site_root/api/v1/public/phenotypes/PH260/version/520/export/codes/?format=json
CSV site_root/phenotypes/PH260/version/520/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('PH260', '520', api_client=client)

Version History

Version
ID
Name Owner Publish date
520 Primary Malignancy_Oesophageal 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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