An estimation of the prevalence of genomic disorders using chromosomal microarray data
Open accessAbstract
Multiple genomic disorders result from recurrent deletions or duplications between low copy repeat (LCR) clusters, mediated by nonallelic homologous recombination. These copy number variants (CNVs) often exhibit variable expressivity and/or incomplete penetrance. However, the population prevalence of many genomic disorders has not been estimated accurately. A subset of genomic disorders similarly characterized by CNVs between LCRs have been studied epidemiologically, including Williams-Beuren syndrome (7q11.23), Smith-Magenis syndrome (17p11.2), velocardiofacial syndrome (22q11.21), Prader-Willi/Angelman syndromes (15q11.2q12), 17q12 deletion syndrome, and Charcot-Marie-Tooth neuropathy type 1/hereditary neuropathy with liability to pressure palsy (PMP22, 17q11.2). We have generated a method to estimate prevalence of highly penetrant genomic disorders by (1) leveraging epidemiological data for genomic disorders with previously reported prevalence estimates, (2) obtaining chromosomal microarray data on genomic disorders from a large medical genetics clinic; and (3) utilizing these in a linear regression model to determine the prevalence of this syndromic copy number change among the general population. Using our algorithm, the prevalence for five clinically relevant recurrent genomic disorders: 1q21.1 microdeletion (1/6882 live births) and microduplication syndromes (1/6309), 15q13.3 microdeletion syndrome (1/5525), and 16p11.2 microdeletion (1/3021) and microduplication syndromes (1/4216), were determined. These findings will inform epidemiological strategies for evaluating those conditions, and our method may be useful to evaluate the prevalence of other highly penetrant genomic disorders.
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A predictive algorithm estimated 16p11.2 deletions at 1 in 3,021 live births and duplications at 1 in 4,216.
“A predictive algorithm estimated 16p11.2 deletions to affect 1 in every 3,021 live births, and duplications 1 in every 4,216 [30].”
From 16p11.2 Copy Number Variations and Neurodevelopmental Disorders (2020) · cites this paper as [30]
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- Authors
- Gillentine, M. A., Lupo, P. J., Stankiewicz, P., & Schaaf, C. P.
- Affiliations
- Baylor College of Medicine (US)
- University of Cologne (DE)
- Corresponding author
- Schaaf, Christian P.
- Venue
- Journal of Human Genetics
- Published
- 2018-04-24
- Volume
- 63
- Issue
- 7
- Pages
- 795-801
- ISSN
- 1434-5161 (ISSN-L)
- 1435-232X
- PMC
- PMC6019170
- OpenAlex
- W2799691429
- Cited by
- 61
- References
- 25
- Citations by year
- 2026: 4 · 2025: 3 · 2024: 6 · 2023: 15 · 2022: 8 · 2021: 9 · 2020: 8 · 2019: 6 · 2018: 2
- FWCI
- 3.83
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Journal of Human Genetics (publishedVersion)
- PubMed (publishedVersion)
- Kölner Universitäts PublikationsServer (Universität zu Köln) (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Institute of General Medical Sciences (T32GM008307)
- Eunice Kennedy Shriver National Institute of Child Health and Human Development (U54HD083092, P30HD024064)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genomic variations and chromosomal abnormalities
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genome Rearrangement Algorithms
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genomics and Rare Diseases
- Keywords
- genomic disorders, copy number variation, non-allelic homologous recombination, prevalence estimation, chromosomal microarray analysis, Williams syndrome, Smith-Magenis syndrome, 22q11.2 deletion syndrome, PMP22, penetrance, variable expressivity
- MeSH terms
- Charcot-Marie-Tooth Disease, Chromosome Deletion, Chromosome Mapping, DiGeorge Syndrome, Humans, Models, Genetic, Prader-Willi Syndrome, Genome, Human, Prevalence, Molecular Epidemiology, Williams Syndrome, Penetrance, Microarray Analysis, DNA Copy Number Variations, Smith-Magenis Syndrome, Chromosome Duplication
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
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