Evidence map›Paper›PMID 37622442›Full record

ArticleGenetics in medicine : official journal of the American College of Medical Genetics2023

A test of automated use of electronic health records to aid in diagnosis of genetic disease.

Thomas Cassini, Lisa Bastarache, Chenjie Zeng, Sangwoo T Han, Janey Wang, Jing He, Joshua C Denny

Open access · bronzeAbstract read
In one paragraph

Article in Genetics in medicine : official journal of the American College of Medical Genetics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
1.8field-weighted citation impact, top 14% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

5 citing papers in PubMed, 7 citations in OpenAlex.

  1. Developing a phenotype risk score formedRxiv : the preprint server for health sciences · 2026
    Article
  2. Article
  3. Review
  4. Systematic method for classifying multiple congenital anomaly cases in electronic health records.Genetics in medicine : official journal of the American College of Medical Genetics · 2025
    Article
  5. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 2 institutions in 1 country.

Thomas CassiniNational Human Genome Research Institute, National Institutes of Health, Bethesda, MD; Department of Pediatrics, Vanderbilt University Medical Center, Nashville TN. Electronic address: thomas.a.cassini@gmail.com.
Lisa BastaracheDepartment of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, TN.
Chenjie ZengNational Human Genome Research Institute, National Institutes of Health, Bethesda, MD.
Sangwoo T HanNational Human Genome Research Institute, National Institutes of Health, Bethesda, MD.
Janey WangDepartment of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, TN.
Jing HeDepartment of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, TN.
Joshua C DennyNational Human Genome Research Institute, National Institutes of Health, Bethesda, MD.
National Institutes of Health · USVanderbilt University Medical Center · US

Funding

From GWAS to PheWAS: Scanning the EMR Phenome for Gene-disease AssociationsR01LM010685 · NLM · VANDERBILT UNIVERSITY MEDICAL CENTER · PI BASTARACHE, LISA · 2011 to 2022
$6.3M
Translating the Clinical Knowledge of Mendelian Diseases to Real-world EHR Data to Improve Identification of Undiagnosed PatientsR01HG012657 · NHGRI · VANDERBILT UNIVERSITY MEDICAL CENTER · PI Lisa Bastarache, Douglas Ruderfer · 2022 to 2026
$4.3M
Improving precision health approaches through large-scale EHRs and biobanksZIAHG200417 · NHGRI · NATIONAL HUMAN GENOME RESEARCH INSTITUTE · PI DENNY, JOSHUA · 2022 to 2024
$4.2M
Intramural NIH HHS ZIA HG200417NHGRI NIH HHS R01 HG012657NLM NIH HHS R01 LM010685
6 · The paper itself

Abstract

purposeAutomated use of electronic health records may aid in decreasing the diagnostic delay for rare diseases. The phenotype risk score (PheRS) is a weighted aggregate of syndromically related phenotypes that measures the similarity between an individual's conditions and features of a disease. For some diseases, there are individuals without a diagnosis of that disease who have scores similar to diagnosed patients. These individuals may have that disease but not yet be diagnosed.

methodsWe calculated the PheRS for cystic fibrosis (CF) for 965,626 subjects in the Vanderbilt University Medical Center electronic health record.

resultsOf the 400 subjects with the highest PheRS for CF, 248 (62%) had been diagnosed with CF. Twenty-six of the remaining participants, those who were alive and had DNA available in the linked DNA biobank, underwent clinical review and sequencing analysis of CFTR and SERPINA1. This uncovered a potential diagnosis for 2 subjects, 1 with CF and 1 with alpha-1-antitrypsin deficiency. An additional 7 subjects had pathogenic or likely pathogenic variants, 2 in CFTR and 5 in SERPINA1.

conclusionThese findings may be clinically actionable for the providers caring for these patients. Importantly, this study highlights feasibility and challenges for future implications of this approach.

Indexed as

Cystic FibrosisCystic Fibrosis Transmembrane Conductance RegulatorDelayed DiagnosisDNAElectronic Health RecordsHumansMutationCystic Fibrosis Transmembrane Conductance RegulatorDNAAlpha-1-antitrypsin deficiencyCystic fibrosisDiagnostic aidElectronic health recordsPhenotype risk score

Identifiers

PMID37622442
PMCPMC10840718
OpenAlexW4386052847

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.