OHDSI Phenotype Phebruary and workgroup updates

General
6

These are the initial instructions on how to do a systematic search for Phenotype Algorithms. As part of Phenotype Pheburary 2024, we are looking forward to community input to make this search criteria and process better.

Step-by-Step Instructions for PubMed Search on Phenotype Definitions

Example: Alzheimer’s Disease

1. Accessing PubMed:

2. Using MeSH Terms:

  • Under the search field, select ‘Advanced’.
  • Choose ‘MeSH Terms’ from the dropdown in the ‘Add terms to query box’.
  • Enter your clinical condition of interest, e.g., ‘Alzheimer Disease’, and press ‘Add’.

3. Entering Search Terms:

  • Now, select ‘All Fields’ from the dropdown.
  • Copy and paste the following text into the ‘Enter search term’ box and press ‘Add’:
(
    (
        (retrospective cohort) 
        OR (epidemiology [MeSH Terms])
        OR (Epidemiologic Methods[MeSH Terms])
        OR (phenotype[Text Word])
        OR (Validation Study[Publication Type])
        OR (positive predictive value[Text Word])
        OR (Validation Studies as Topic[MeSH Terms])
        OR (Sensitivity and Specificity[MeSH Terms])
        OR (insurance OR claims OR administrative OR health care)
    ) 
    OR database 
    OR algorithm
)

AND
(
    (
        (Medicaid) 
        OR (Medicare)
        OR (Truven)
        OR (Optum)
        OR (Medstat)
        OR (Nationwide Inpatient Sample)
        OR (National Inpatient Sample)
        OR (PharMetrics)
        OR (PHARMO)
        OR (ICD-9[Title/Abstract])
        OR (ICD-10[Title/Abstract])
        OR (IMS[Title/Abstract])
        OR (electronic medical record[Text Word])
        OR (Denmark/epidemiology[MeSH Terms])
        OR (Veterans Affairs[Title/Abstract])
        OR (Premier database[Title/Abstract])
        OR (Database Management System[MeSH Terms])
        OR (National Health Insurance Research [MeSH Terms])
        OR (administrative claims[Text Word])
        OR (General Practice Research Database[Text Word])
        OR (Clinical Practice Research Datalink[Text Word])
        OR (The Health Improvement Network[Text Word])
    )
)

NOT
(
    (
        "Clinical Trial"[pt] 
        OR "Editorial"[pt] 
        OR "Letter"[pt] 
        OR "Randomized Controlled Trial"[pt] 
        OR "Clinical Trial, Phase I"[pt] 
        OR "Clinical Trial, Phase II"[pt] 
        OR "Clinical Trial, Phase III"[pt] 
        OR "Clinical Trial, Phase IV"[pt] 
        OR "Comment"[pt] 
        OR "Controlled Clinical Trial"[pt] 
        OR "Letter"[pt] 
        OR "Case Reports"[pt] 
        OR "Clinical Trials as Topic"[Mesh] 
        OR "double-blind"[All] 
        OR "placebo-controlled"[All] 
        OR "pilot study"[All] 
        OR "pilot projects"[Mesh] 
        OR "Prospective Studies"[Mesh]
        OR "Genetics"[Mesh]
        OR "Genotype"[Mesh]
        OR (biomarker[Title/Abstract])
    )
)
  • Click ‘Search’.

4. Narrowing Down Results:

  • If the results are too numerous (>100), narrow down by the last 4 years.
  • Record the number of remaining studies for review.

5. Abstract Review:

  • Review abstracts for relevance.
  • Dismiss studies that don’t meet any of these criteria (non-original research, non-observational studies, different diseases or outcomes, methods not indicating the use of study definition).

6. Selecting Studies:

  • Mark relevant studies.
  • Record the number of remaining studies (expected to be up to 50% of the initial studies).
  • Include original validation studies if referenced. If one of the studies mention a use of a validated definition from an earlier study, please trace the referenced original validation study (even if it was out of the calendar time covered by the search).

7. Saving Your Search:

  • Save your selected studies.
  • You can save them to Clipboard for 3-day access, email the results, or export them to a citation manager.
1 Like