Cited by 450Genomics and Rare DiseasesMetabolism and Genetic DisordersConnective tissue disorders research

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Rapid whole-genome sequencing decreases infant morbidity and cost of hospitalization

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Farnaes, Lauge, Hildreth, Amber, Sweeney, Nathaly M., Clark, Michelle M., Chowdhury, Shimul, Nahas, Shareef, Cakici, Julie A., Benson, Wendy, Kaplan, Robert H., Kronick, Richard, Bainbridge, Matthew N., Friedman, Jennifer, Gold, Jeffrey J., Ding, Yan, Veeraraghavan, Narayanan, Dimmock, David, Kingsmore, Stephen F.·2018·npj Genomic Medicine

DOI 10.1038/s41525-018-0049-4PMC PMC5884823

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Abstract

Genetic disorders are a leading cause of morbidity and mortality in infants. Rapid whole-genome sequencing (rWGS) can diagnose genetic disorders in time to change acute medical or surgical management (clinical utility) and improve outcomes in acutely ill infants. We report a retrospective cohort study of acutely ill inpatient infants in a regional children’s hospital from July 2016–March 2017. Forty-two families received rWGS for etiologic diagnosis of genetic disorders. Probands also received standard genetic testing as clinically indicated. Primary end-points were rate of diagnosis, clinical utility, and healthcare utilization. The latter was modelled in six infants by comparing actual utilization with matched historical controls and/or counterfactual utilization had rWGS been performed at different time points. The diagnostic sensitivity of rWGS was 43% (eighteen of 42 infants) and 10% (four of 42 infants) for standard genetic tests ( P = .0005). The rate of clinical utility of rWGS (31%, thirteen of 42 infants) was significantly greater than for standard genetic tests (2%, one of 42; P = .0015). Eleven (26%) infants with diagnostic rWGS avoided morbidity, one had a 43% reduction in likelihood of mortality, and one started palliative care. In six of the eleven infants, the changes in management reduced inpatient cost by $800,000–$2,000,000. These findings replicate a prior study of the clinical utility of rWGS in acutely ill inpatient infants, and demonstrate improved outcomes and net healthcare savings. rWGS merits consideration as a first tier test in this setting.

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Fig. 1 Flow diagram of the proportion of inpatient infants who were enrolled, received genetic disease diagnoses by rWGS or by standard tests, had consequent acute changes in management (precision medicine), resultant change in outcome, and analysis of impact on acute healthcare utilization. *Include: diagnosis obtained via clinical testing, symptoms determined to not likely be due to a genetic etiology, and/or parents unavailable for consentCC BY · PubMed Central

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Authors: Farnaes, L., Hildreth, A., Sweeney, N. M., Clark, M. M., Chowdhury, S., Nahas, S., Cakici, J. A., Benson, W., Kaplan, R. H., Kronick, R., Bainbridge, M. N., Friedman, J., Gold, J. J., Ding, Y., Veeraraghavan, N., Dimmock, D., & Kingsmore, S. F.
Affiliations: University of California San Diego (US)
Rady Children's Institute for Genomic Medicine (US)
Corresponding author: Kingsmore, Stephen F.
ORCID: Farnaes, Lauge
Hildreth, Amber
Sweeney, Nathaly M.
Clark, Michelle M.
Chowdhury, Shimul
Nahas, Shareef
Cakici, Julie A.
Benson, Wendy
Kronick, Richard
Bainbridge, Matthew N.
Friedman, Jennifer
Gold, Jeffrey J.
Ding, Yan
Veeraraghavan, Narayanan
Dimmock, David
Kingsmore, Stephen F.
Venue: npj Genomic Medicine
Publisher: Springer Science and Business Media LLC
Published: 2018-04-04
Volume: 3
Issue: 1
Pages: 10-10
ISSN: 2056-7944 (ISSN-L)
DOI: 10.1038/s41525-018-0049-4
PMC: PMC5884823
OpenAlex: W2795749588
Cited by: 445
References: 34
Citations by year: 2026: 33 · 2025: 39 · 2024: 51 · 2023: 67 · 2022: 69 · 2021: 68 · 2020: 60 · 2019: 46 · 2018: 11
FWCI: 28.30
Type: journal article
Language: en
Open access: gold
doi.org
Licence: cc-by
creativecommons.org/licenses/by/4.0 (tdm)
creativecommons.org/licenses/by/4.0 (vor)
Locations: npj Genomic Medicine (publishedVersion, cc-by)
PubMed Central (publishedVersion, cc-by)
PubMed (publishedVersion)
DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
Funders: National Human Genome Research Institute
Eunice Kennedy Shriver National Institute of Child Health and Human Development (U19HD077693, R01HD101540)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genomics and Rare Diseases
Life Sciences › Biochemistry, Genetics and Molecular Biology › Clinical Biochemistry › Metabolism and Genetic Disorders
Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Connective tissue disorders research
Keywords: rapid whole genome sequencing, infants, genetic disorders, diagnostic yield, clinical utility, health care utilization, hospital costs, acute illness, diagnostic sensitivity, palliative care, mortality

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Rapid whole-genome sequencing decreases infant morbidity and cost of hospitalization

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