Large-scale copy number polymorphism in the human genome
Abstract
The extent to which large duplications and deletions contribute to human genetic variation and diversity is unknown. Here, we show that large-scale copy number polymorphisms (CNPs) (about 100 kilobases and greater) contribute substantially to genomic variation between normal humans. Representational oligonucleotide microarray analysis of 20 individuals revealed a total of 221 copy number differences representing 76 unique CNPs. On average, individuals differed by 11 CNPs, and the average length of a CNP interval was 465 kilobases. We observed copy number variation of 70 different genes within CNP intervals, including genes involved in neurological function, regulation of cell growth, regulation of metabolism, and several genes known to be associated with disease.
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Submicroscopic copy-number variants smaller than 500 kb are common in normal human genomes.
“In 2004, two landmark studies (Iafrate et al., 2004; Sebat et al., 2004) demonstrated that submicroscopic variations (<500 kb in size) in DNA copy number (CNVs) are widespread in normal human genomes.”
From CNVs: Harbingers of a Rare Variant Revolution in Psychiatric Genetics (2012) · cites this paper as Sebat et al., 2004
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- Authors
- Sebat, J., Lakshmi, B., Troge, J., Alexander, J., Young, J., Lundin, P., Månér, S., Massa, H., Walker, M., Chi, M., Navin, N., Lucito, R., Healy, J., Hicks, J., Ye, K., Reiner, A., Gilliam, T. C., Trask, B., Patterson, N., Zetterberg, A., & Wigler, M.
- Affiliations
- Cold Spring Harbor Laboratory (US)
- Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA.
- Broad Institute (US)
- Corresponding author
- Wigler, Michael
- ORCID
- Venue
- Science
- Published
- 2004-07-23
- Volume
- 305
- Issue
- 5683
- Pages
- 525-528
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- OpenAlex
- W2124873881
- Cited by
- 2,557
- References
- 25
- Citations by year
- 2026: 16 · 2025: 28 · 2024: 50 · 2023: 42 · 2022: 26 · 2021: 54 · 2020: 59 · 2019: 63 · 2018: 68 · 2017: 85 · 2016: 70 · 2015: 117 · 2014: 122 · 2013: 138 · 2012: 143
- FWCI
- 106.44
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Science (publishedVersion)
- PubMed (publishedVersion)
- Cold Spring Harbor Laboratory Institutional Repository (Cold Spring Harbor Laboratory) (acceptedVersion)
- Funders
- National Institutes of Health (5r21hg002606-02)
- National Human Genome Research Institute (HG02606)
- National Cancer Institute (R01CA078544, 5T32 CA069311, CA81674, CA078544)
- National Institute on Deafness and Other Communication Disorders (R01DC004209, DC004209)
- National Institute of General Medical Sciences (GM057070, R01GM057070)
- 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 › Genetic Associations and Epidemiology
- Keywords
- copy number variation, large deletions, human genetic variation, gene copy number variation, disease-associated genes
- MeSH terms
- Alleles, Bacterial Proteins, Cell Line, Transformed, Chromosome Aberrations, Chromosome Mapping, Chromosomes, Human, Female, Gene Frequency, Humans, Male, Markov Chains, Polymorphism, Genetic, Genetic Variation, Deoxyribonuclease HindIII, Deoxyribonucleases, Type II Site-Specific, Genome, Human, Gene Deletion, Gene Dosage, Oligonucleotide Array Sequence Analysis, Gene Duplication
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