Phenotype Library | phenotype: Primary Malignancy

Primary Malignancy_Prostate

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

PH265

Version ID

530

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_Prostate' 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_Prostate diagnosis or history of diagnosis during a consultation

OR Secondary care

ALL diagnoses of Primary Malignancy_Prostate or history of diagnosis during a hospitalization

Implementation

PhenoFlow Implementation:

https://kclhi.org/phenoflow/phenotype/download/772

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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C1439/4017 Primary Malignancy_Prostate - Primary care - Read codes v2

Rows: 13

Code	Description	Disease	Medcode	Category
1427000.0	H/O: prostate cancer	Primary Malignancy_Prostate	102314.0	History of Primary Malignancy_Prostate
4M0..00	Gleason grading of prostate cancer	Primary Malignancy_Prostate	10178.0	Diagnosis of Primary Malignancy_Prostate
4M00.00	Gleason prostate grade 2-4 (low)	Primary Malignancy_Prostate	18503.0	Diagnosis of Primary Malignancy_Prostate
4M01.00	Gleason prostate grade 5-7 (medium)	Primary Malignancy_Prostate	18612.0	Diagnosis of Primary Malignancy_Prostate
4M02.00	Gleason prostate grade 8-10 (high)	Primary Malignancy_Prostate	26081.0	Diagnosis of Primary Malignancy_Prostate
7B20000	Radical cystoprostatourethrectomy	Primary Malignancy_Prostate	9541.0	Procedure for Primary Malignancy_Prostate
7B20200	Radical cystoprostatectomy	Primary Malignancy_Prostate	10633.0	Procedure for Primary Malignancy_Prostate
7B36000	Radical prostatectomy - unspecified excision of pelvic nodes	Primary Malignancy_Prostate	4997.0	Procedure for Primary Malignancy_Prostate
7B36500	Radical prostatectomy without pelvic node excision	Primary Malignancy_Prostate	12593.0	Procedure for Primary Malignancy_Prostate
7B36600	Radical prostatectomy with pelvic node sampling	Primary Malignancy_Prostate	11492.0	Procedure for Primary Malignancy_Prostate
7B36700	Radical prostatectomy with pelvic lymphadenectomy	Primary Malignancy_Prostate	9533.0	Procedure for Primary Malignancy_Prostate
B46..00	Malignant neoplasm of prostate	Primary Malignancy_Prostate	780.0	Diagnosis of Primary Malignancy_Prostate
ZV10415	[V]Personal history of malignant neoplasm of prostate	Primary Malignancy_Prostate	37306.0	History of Primary Malignancy_Prostate

C1440/4019 Primary Malignancy_Prostate - Primary care - Med codes

Rows: 13

Code	Description	Disease	ReadcodeDescr	Readcode
10178.0	Diagnosis of Primary Malignancy_Prostate	Primary Malignancy_Prostate	Gleason grading of prostate cancer	4M0..00
102314.0	History of Primary Malignancy_Prostate	Primary Malignancy_Prostate	H/O: prostate cancer	1427000.0
10633.0	Procedure for Primary Malignancy_Prostate	Primary Malignancy_Prostate	Radical cystoprostatectomy	7B20200
11492.0	Procedure for Primary Malignancy_Prostate	Primary Malignancy_Prostate	Radical prostatectomy with pelvic node sampling	7B36600
12593.0	Procedure for Primary Malignancy_Prostate	Primary Malignancy_Prostate	Radical prostatectomy without pelvic node excision	7B36500
18503.0	Diagnosis of Primary Malignancy_Prostate	Primary Malignancy_Prostate	Gleason prostate grade 2-4 (low)	4M00.00
18612.0	Diagnosis of Primary Malignancy_Prostate	Primary Malignancy_Prostate	Gleason prostate grade 5-7 (medium)	4M01.00
26081.0	Diagnosis of Primary Malignancy_Prostate	Primary Malignancy_Prostate	Gleason prostate grade 8-10 (high)	4M02.00
37306.0	History of Primary Malignancy_Prostate	Primary Malignancy_Prostate	[V]Personal history of malignant neoplasm of prostate	ZV10415
4997.0	Procedure for Primary Malignancy_Prostate	Primary Malignancy_Prostate	Radical prostatectomy - unspecified excision of pelvic nodes	7B36000
780.0	Diagnosis of Primary Malignancy_Prostate	Primary Malignancy_Prostate	Malignant neoplasm of prostate	B46..00
9533.0	Procedure for Primary Malignancy_Prostate	Primary Malignancy_Prostate	Radical prostatectomy with pelvic lymphadenectomy	7B36700
9541.0	Procedure for Primary Malignancy_Prostate	Primary Malignancy_Prostate	Radical cystoprostatourethrectomy	7B20000

C1441/4021 Primary Malignancy_Prostate - Secondary care - Diagnoses - ICD10 codes

Rows: 1

Code	Description	Disease	Category
C61	Malignant neoplasm of prostate	Primary Malignancy_Prostate	Diagnosis of Primary Malignancy_Prostate

API

To Export Phenotype Details:

Format	API
XML	site_root/api/v1/public/phenotypes/PH265/version/530/detail/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH265/version/530/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('PH265', '530', api_client=client)`

To Export Phenotype Code List:

Format	API
XML	site_root/api/v1/public/phenotypes/PH265/version/530/export/codes/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH265/version/530/export/codes/?format=json
CSV	site_root/phenotypes/PH265/version/530/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('PH265', '530', api_client=client)`

Version History

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