Abstract
We construct a mathematical model for two whole genome amplification strategies, primer extension preamplification (PEP) and tagged polymerase chain reaction (tagged PCR). An explicit formula for the expected target yield of PEP is obtained. The distribution of the target yield and the coverage properties of these two strategies are studied by simulations. From our studies we find that polymerase with high processivity may increase the efficiency of PEP and tagged PCR.
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Selected References
These references are in PubMed. This may not be the complete list of references from this article.
- Dear P. H., Cook P. R. Happy mapping: linkage mapping using a physical analogue of meiosis. Nucleic Acids Res. 1993 Jan 11;21(1):13–20. doi: 10.1093/nar/21.1.13. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Eberwine J., Yeh H., Miyashiro K., Cao Y., Nair S., Finnell R., Zettel M., Coleman P. Analysis of gene expression in single live neurons. Proc Natl Acad Sci U S A. 1992 Apr 1;89(7):3010–3014. doi: 10.1073/pnas.89.7.3010. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Grothues D., Cantor C. R., Smith C. L. PCR amplification of megabase DNA with tagged random primers (T-PCR). Nucleic Acids Res. 1993 Mar 11;21(5):1321–1322. doi: 10.1093/nar/21.5.1321. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kristjansson K., Chong S. S., Van den Veyver I. B., Subramanian S., Snabes M. C., Hughes M. R. Preimplantation single cell analyses of dystrophin gene deletions using whole genome amplification. Nat Genet. 1994 Jan;6(1):19–23. doi: 10.1038/ng0194-19. [DOI] [PubMed] [Google Scholar]
- Lüdecke H. J., Senger G., Claussen U., Horsthemke B. Cloning defined regions of the human genome by microdissection of banded chromosomes and enzymatic amplification. Nature. 1989 Mar 23;338(6213):348–350. doi: 10.1038/338348a0. [DOI] [PubMed] [Google Scholar]
- Telenius H., Carter N. P., Bebb C. E., Nordenskjöld M., Ponder B. A., Tunnacliffe A. Degenerate oligonucleotide-primed PCR: general amplification of target DNA by a single degenerate primer. Genomics. 1992 Jul;13(3):718–725. doi: 10.1016/0888-7543(92)90147-k. [DOI] [PubMed] [Google Scholar]
- Zhang L., Cui X., Schmitt K., Hubert R., Navidi W., Arnheim N. Whole genome amplification from a single cell: implications for genetic analysis. Proc Natl Acad Sci U S A. 1992 Jul 1;89(13):5847–5851. doi: 10.1073/pnas.89.13.5847. [DOI] [PMC free article] [PubMed] [Google Scholar]