Malignancy

Goodwin Davies, Amy

Phenotype

Research-Ready

Malignancy

Variable Name

dx_malignancy

Created

2025-02

Files

Validation Method

Data Model

Phenotype Description

A phenotype for identifying patients with malignancy based on cancer diagnoses and chemotherapy drug exposures.

Downloadable content for this Phenotype includes two R files (cohorts.R and driver.R) and a specs folder, which includes the related concept sets linked below.

Affiliation(s)

Children's Hospital of Philadelphia
PEDSnet Data Coordinating Center

Provenance

Developed as part of the Preserving Kidney Function in Children with Chronic Kidney Disease (PRESERVE) study.

Algothrithm Description

The malignancy computable phenotype will identify a cohort of patients meeting criteria for malignancy (cancer) based on diagnoses and drug exposures.

Inclusion Criteria

This phenotype employs a hierarchical inclusion criteria structure with three tiers. Patients are assessed for Criteria A, assessed for Criteria B if they do not meet Criteria A, and are assessed for Criteria C if they do not meet criteria for A or B. The criteria are:

A: >= 2 cancer diagnoses separated by >= 90 days
B: >= 2 chemotherapy exposures separated by >= 90 days AND >= 1 cancer diagnosis associated with a chemotherapy exposure
C: >= 1 cancer diagnosis and >= 1 chemotherapy exposure separated by >= 90 days AND >= 1 cancer diagnosis associated with a chemotherapy exposure

Exclusion Criteria

No explicit exclusion criteria are applied to this phenotype.

Development Population

Development Code

https://github.com/PRESERVE-Coordinating-Center/PRESERVE_Variables/blob/main/analytic_code/malignancy_phenotype.R

Vocabulary

Clinical Subjects Headings

Data Source

Resource

PCORnet Common Data Model

Created:2025-01Affiliation:Patient-Centered Outcomes Research Network

Documentation created by PCORnet® Network Partners for standardizing millions of data points from clinical information systems participating in the PCORnet Network into a common format.