These are the algorithms for the PRIMED Harmonized systolic and diastolic blood pressures (SBP and DBP). The overall procedure of gathering single BP values per individual consists of:
These are the PRIMED Harmonization instructions for body mass index (BMI).
Overall procedure
1. Extract trait measurements using measurement codes and calculations
2. Convert measurement units to expected units, if necessary
3. Apply measurement exclusion criteria, other than statistical outliers
4. Remove statistical outliers
5. Compute a single value per individual for inclusion in analysis
6. Calculate counts of flagged individuals
These are the PRIMED Harmonization instructions for breast cancer (BC). We are using the breast cancer definition used by the eMERGE program, with some slight modifications. Follow this document for implementation.
Modifications:
We will only include cis females in the analyses
The standard definition requires controls be age 18+. If the age distribution of cases within a study is much older (e.g. 30+), then studies may filter controls based on age >= the minimum age of identified cases
Algorithm for coronary heart disease (aka coronary artery disease) based on research done by the eMERGE Network. Cases are ascertained by either two ocurrences of diagnostic codes or one ocurrence of a procedural code. Defined as individuals with no diagnostic or procedural codes recorded. All ICD-9 and ICD-10 codes are labeled as diagnostic or procedural in the attached excel file.
This is the PRIMED Consortium algorithm to obtain a single Hba1c value per individual to use in analyses. Here is the overall procedures:
This document describes the PRIMED Harmonization algorithms for HDL-C, LDL-C, and TG.
• High density lipoprotein (HDL-C)
• Triglycerides (TG):
o Non-fasting
• Low-density lipoprotein (LDL-C):
o Unadjusted non-fasting
o Adjusted non-fasting
Overall procedure
1. Extract trait measurements using measurement codes and calculations
2. Convert measurement units to expected units, if necessary
3. Apply measurement exclusion criteria
4. Prepare measurements for analysis
We are using the prostate cancer definition used by the eMERGE program, with a slight modification to the control definition (prostate_cancer_status_emerge_mod_1). You can review the eMERGE documentation for reference, but please follow this document for implementation.
Modifications:
Combine “Control A” and “Control B” groups from the provided schematic figure into a single control group for analysis
Controls should be filtered based on age >= the minimum age of identified cases to the age distributions of cases and controls are comparable within each study
There are two case algorithms provided for T2D. The first (t2d_dprism_ehr_plus_1) is the preferred case algorithm and includes self-reported T2D information collected from survey. The second (t2d_dprism_ehr_1) is an alternative case algorithm that does NOT include self-reported T2D information collected from survey.
We request harmonization based on the preferred algorithm, but if self-reported T2D survey information is not available, the alternative algorithm is acceptable.
These are the PRIMED harmonization instructions for white blood cell count (WBC).
To ascertain a single white blood cell count value per individual, adhere to the instructions as follows: