Abstract
We developed a general method, microarray-based genomic selection (MGS), capable of selecting and enriching targeted sequences from complex eukaryotic genomes without the repeat blocking steps necessary for bacterial artificial chromosome (BAC)-based genomic selection. We demonstrate that large human genomic regions, on the order of hundreds of kilobases, can be enriched and resequenced with resequencing arrays. MGS, when combined with a next-generation resequencing technology, can enable large-scale resequencing in single-investigator laboratories.
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References
Cutler, D.J. et al. Genome Res. 11, 1913–1925 (2001).
Margulies, M. et al. Nature 437, 376–380 (2005).
Shendure, J., Mitra, R.D., Varma, C. & Church, G.M. Nat. Rev. Genet. 5, 335–344 (2004).
Shendure, J. et al. Science 309, 1728–1732 (2005).
Zwick, M.E. et al. Genome Biol. 6, R10 (2005).
Hinds, D.A. et al. Science 307, 1072–1079 (2005).
Sjoblom, T. et al. Science 314, 268–274 (2006).
Raymond, C.K. et al. Genomics 86, 759–766 (2005).
Raymond, C.K., Sims, E.H. & Olson, M.V. Genome Res. 12, 190–197 (2002).
Kouprina, N., Noskov, V.N. & Larionov, V. Methods Mol. Biol. 349, 85–101 (2006).
Dahl, F. et al. Proc. Natl. Acad. Sci. USA 104, 9387–9392 (2007).
Bashiardes, S. et al. Nat. Methods 2, 63–69 (2005).
De Boulle, K. et al. Nat. Genet. 3, 31–35 (1993).
Gu, Y., Lugenbeel, K.A., Vockley, J.G., Grody, W.W. & Nelson, D.L. Hum. Mol. Genet. 3, 1705–1706 (1994).
Porreca, G.J. et al. Nat. Methods, advance online publication 14 October 2007 (doi:10.1038/nmeth1110).
Albert, T.J. et al. Nat. Methods, advance online publication 14 October 2007 (doi:10.1038/nmeth1111).
Bentley, D.R. Curr. Opin. Genet. Dev. 16, 545–552 (2006).
Acknowledgements
Funding for this work was provided by the US National Institutes of Health (NIH) National Institute of Mental Health RO1 MH076439-03 (MEZ) and by the Gift Fund, NIH.
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T.J.A. and C.M. are employees of NimbleGen Systems, Inc.
Supplementary information
Supplementary Text and Figures
Supplementary Figures 1–2, Supplementary Methods, Supplementary Table 1 (PDF 1776 kb)
Supplementary Data 1
Oligonucleotide Capture Probes for 50kb FMR1 Genomic Region (DOC 25359 kb)
Supplementary Data 2
Oligonucleotide Capture Probes for 304kb FMR1/FMR2 Genomic Region (DOC 28891 kb)
Supplementary Data 3
DNA Sequence Data for 50kb Region (ZIP 65 kb)
Supplementary Data 4
DNA Sequence Data for 304kb Region (ZIP 1893 kb)
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Okou, D., Steinberg, K., Middle, C. et al. Microarray-based genomic selection for high-throughput resequencing. Nat Methods 4, 907–909 (2007). https://doi.org/10.1038/nmeth1109
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DOI: https://doi.org/10.1038/nmeth1109
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