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Secondary Malignancy_Bowel

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
PH292
Version ID
584
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 Bowel 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 Bowel diagnosis or history of diagnosis during a consultation

OR Secondary care

  1. ALL diagnoses of Secondary Malignancy Bowel 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: 9
Code Description Disease Medcode Category
B574.00 Secondary malignant neoplasm of small intestine and duodenum Secondary Malignancy_Bowel 64680.0 Diagnosis of Secondary Malignancy_Bowel
B574000 Secondary malignant neoplasm of duodenum Secondary Malignancy_Bowel 55946.0 Diagnosis of Secondary Malignancy_Bowel
B574100 Secondary malignant neoplasm of jejunum Secondary Malignancy_Bowel 110433.0 Diagnosis of Secondary Malignancy_Bowel
B574200 Secondary malignant neoplasm of ileum Secondary Malignancy_Bowel 99511.0 Diagnosis of Secondary Malignancy_Bowel
B574z00 Secondary malig neop of small intestine or duodenum NOS Secondary Malignancy_Bowel 70026.0 Diagnosis of Secondary Malignancy_Bowel
B575.00 Secondary malignant neoplasm of large intestine and rectum Secondary Malignancy_Bowel 44529.0 Diagnosis of Secondary Malignancy_Bowel
B575000 Secondary malignant neoplasm of colon Secondary Malignancy_Bowel 28727.0 Diagnosis of Secondary Malignancy_Bowel
B575100 Secondary malignant neoplasm of rectum Secondary Malignancy_Bowel 62909.0 Diagnosis of Secondary Malignancy_Bowel
B575z00 Secondary malig neop of large intestine or rectum NOS Secondary Malignancy_Bowel 36200.0 Diagnosis of Secondary Malignancy_Bowel
Rows: 9
Code Description Disease ReadcodeDescr Readcode
110433.0 Diagnosis of Secondary Malignancy_Bowel Secondary Malignancy_Bowel Secondary malignant neoplasm of jejunum B574100
28727.0 Diagnosis of Secondary Malignancy_Bowel Secondary Malignancy_Bowel Secondary malignant neoplasm of colon B575000
36200.0 Diagnosis of Secondary Malignancy_Bowel Secondary Malignancy_Bowel Secondary malig neop of large intestine or rectum NOS B575z00
44529.0 Diagnosis of Secondary Malignancy_Bowel Secondary Malignancy_Bowel Secondary malignant neoplasm of large intestine and rectum B575.00
55946.0 Diagnosis of Secondary Malignancy_Bowel Secondary Malignancy_Bowel Secondary malignant neoplasm of duodenum B574000
62909.0 Diagnosis of Secondary Malignancy_Bowel Secondary Malignancy_Bowel Secondary malignant neoplasm of rectum B575100
64680.0 Diagnosis of Secondary Malignancy_Bowel Secondary Malignancy_Bowel Secondary malignant neoplasm of small intestine and duodenum B574.00
70026.0 Diagnosis of Secondary Malignancy_Bowel Secondary Malignancy_Bowel Secondary malig neop of small intestine or duodenum NOS B574z00
99511.0 Diagnosis of Secondary Malignancy_Bowel Secondary Malignancy_Bowel Secondary malignant neoplasm of ileum B574200
Rows: 2
Code Description Disease Category
C78.4 Secondary malignant neoplasm of small intestine Secondary Malignancy_Bowel Diagnosis of Secondary Malignancy_Bowel
C78.5 Secondary malignant neoplasm of large intestine and rectum Secondary Malignancy_Bowel Diagnosis of Secondary Malignancy_Bowel

API

To Export Phenotype Details:

Format API
XML site_root/api/v1/public/phenotypes/PH292/version/584/detail/?format=xml
JSON site_root/api/v1/public/phenotypes/PH292/version/584/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('PH292', '584', api_client=client)

To Export Phenotype Code List:

Format API
XML site_root/api/v1/public/phenotypes/PH292/version/584/export/codes/?format=xml
JSON site_root/api/v1/public/phenotypes/PH292/version/584/export/codes/?format=json
CSV site_root/phenotypes/PH292/version/584/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('PH292', '584', api_client=client)

Version History

Version
ID
Name Owner Publish date
584 Secondary Malignancy_Bowel 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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