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Phenotyping methods for linked EHRs - CALIBER

Primary and Secondary care records are increasingly being linked for use in research. These data, however, are collected as part of routine care or for administrative purposes and a significant amount of work is required to build robust and accurate definitions of clinical concepts that can used to identify cases for further study.

In this course we present the basic theory behind the extraction of phenotype data from combined data resources such as CALIBER.

Learning Objectives

Through this practical course, participants will:

  • become familiar with two contemporary primary and secondary data sources (CPRD and HES);
  • learn what types of EHR data are collected and the different ways in which data are recorded;
  • understand how to combine linked EHR data sources to define disease cases. 
Time Session Title Led by
09:00-09:30 Registration and coffee  
09:30-10:30 Phenotyping electronic health records for research - theory Dr Arturo Gonzalez-Izquierdo
10:30-10:45 Case study - Phenotyping Cancer Dr Costantinos Parisinos
10:45-11:00 Coffee  
11:00-11:45 Phenotyping COPD Dr Jennifer Quint
11:45-12:15 Practical Dr Arturo Gonzalez-Izquierdo,
Dr Jennifer Quint,
Dr Costantinos Parisinos,
Dr Spiros Denaxas,
Dr Ghazaleh Fatemifar
12:15-13:15 Lunch  
13:15-14:15 Practical Dr Arturo Gonzalez-Izquierdo, 
Dr Jennifer Quint,
Dr Costantinos Parisinos, 
Dr Spiros Denaxas,
Dr Ghazaleh Fatemifar
14:15-15:15 Validating COPD phenotype across linked data sources Dr Jennifer Quint
15:15-15:30 Case study - Phenotyping myocardial infarction (UK Biobank) Dr Ghazaleh Fatemifar
15:30-15:45 Coffee  
15:45-16:30 Alternative methods - next generation phenotyping Dr Spiros Denaxas
16:30-16:45 Review of the day Dr Arturo Gonzalez-Izquierdo
16:45- 17:00 Q&A session Dr Arturo Gonzalez-Izquierdo, 
Dr Jennifer Quint,
Dr Costantinos Parisinos, 
Dr Spiros Denaxas,
Dr Ghazaleh Fatemifar

Course Team

Dr Arturo Gonzalez-Izquierdo (Lead Tutor)
Dr Spiros Denaxas
Dr Ghazaleh Fatemifar
Dr Constantinos Parisinos
Dr Jennifer Quint