Acknowledgement
Supported by : 한국연구재단
References
- Adams, M. D. et al., "Complementary DNA sequencing: expressed sequence tags and human genome project", Science, Vol. 252, No. 5013, pp. 1651-1656, Jun 1991. https://doi.org/10.1126/science.2047873
- Sanger, F., Nicklen, S., and Coulson, A. R., "DNA sequencing with chain-terminating inhibitors", Proc. Natl. Acad. Sci., Vol. 74, No. 12,, pp. 5463-5467, Dec 1977. https://doi.org/10.1073/pnas.74.12.5463
- Metzker, M. L., "Sequencing technologies - the next generation", Nature Reviews - Genetics, Vol. 11, pp. 31-46, Jan 2010. https://doi.org/10.1038/nrg2626
- Mardis, E. R., "The impact of next-generation sequencing technology on genetics", Trends in Genetics, 2008.
- Mardis, E. R., "Next-Generation DNA Sequencing Methods", Annual Review of Genomics and Human Genetics, Vol. 9, pp 387-402, Sep 2008. https://doi.org/10.1146/annurev.genom.9.081307.164359
- Shendure, J. A., "Next-generation DNA sequencing", Nature Biotechnology, 2008.
- Bentley, D. R. et al., "Accurate whole human genome sequencing using reversible terminator chemistry", Vol. 456, pp. 53-59, Nov 2008. https://doi.org/10.1038/nature07517
- Shendure, J. A., Porreca, G., Church, G., "Overview of DNA Sequencing Strategies", Current Protocols in Molecular Biology. Jan 2008.
- McLachlan, G. J. and Krishnan, T., The EM algorithm and extensions, 2nd Ed., pp. 3-26, John Wiley and Sons, 2008.
- Garey, M. R., and Johnson, D. S., "Computers and Intractability: A Guide to the Theory of NP-Completeness. Freeman", W.H., p.228, 1979.
- Li, R. et al., "De novo assembly of human genomes with massively parallel short read sequencing", Genome Res., vol. 20, pp.265-272, 2010. https://doi.org/10.1101/gr.097261.109
- Krzysztofcyran, "Algorithms in Bioinformatics.08 - DNA mapping and sequencing", BioInfoBank, http://lib.bioinfo.pl/files/courses/pdfcache/lecture_495.pdf, 2010.
- Miller, J. R.., Korena, S., and Sutton, G., "Assembly algorithms for next-generation sequencing data", Genomics, Vol. 95, Issue 6, pp. 315-327,June 2010. https://doi.org/10.1016/j.ygeno.2010.03.001
- Khaja, R. et al., "Genome assembly comparison identifies structural variants in the human genome", Nature Genetics, vol. 38, pp.1413-1418, 2006. https://doi.org/10.1038/ng1921
- Zerbino, D. R., and Birney, E., "Velvet: Algorithms for de novo short read assembly using de Bruijn graphs", Genome Res., vol. 18, pp. 821-829, 2008. https://doi.org/10.1101/gr.074492.107
- "MIRA", http://mira-assembler.sourceforge.net/
- Bruce Carlson, "SNPs-A Shortcut to Personalized Medicine", BioMarket Trends, Vol. 28, No. 12, p. 12, Jun 2008.
- Cormen, Leiserson, and Rivest, Introduction to Algorithms, Chapter 16 "Greedy Algorithms" p. 329, 1990.
- Iwamoto, C., and Toussaint, G., "Finding Hamiltonian circuits in arrangements of Jordan curves is NPcomplete", Information Processing Letters, Vol. 52, pp. 183-189, 1994. https://doi.org/10.1016/0020-0190(94)90125-2
- Pevzner, P. A., Tang, H., Waterman, M. S., "An Eulerian trail approach to DNA fragment assembly", PNAS, vol. 98, no. 17, pp. 9748-9753, 2001. https://doi.org/10.1073/pnas.171285098
- "Center for Bioinformatics & Computational Biology", http://www.cbcb.umd.edu/research/assembly_primer.shtml
- Warren, R. L., Sutton, G. G., Jones, S. J., Holt, R. A., "Assembling millions of short DNA sequences using SSAKE", Bioinformatics, Vol. 23, pp. 500-501, 2007. https://doi.org/10.1093/bioinformatics/btl629
- Dohm, J. C. et al., SHARCGS, "a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing", Genome Res., Vol. 17, pp. 1697-1706, 2007. https://doi.org/10.1101/gr.6435207
- Jeck, W. R. et al., "Extending assembly of short DNA sequences to handle error", Bioinformatics, Vol. 23, pp. 2942-2944, 2007. https://doi.org/10.1093/bioinformatics/btm451
- Margulies, M. et al., "Genome sequencing in microfabricated high-density picolitre reactors", Nature, Vol. 437, pp. 376-380, 2005.
- Myers, E. W. et al., "A whole-genome assembly of Drosophila", Science, Vol. 287, pp. 2196-2204, 2000. https://doi.org/10.1126/science.287.5461.2196
- Hernandez, D. et al., "De novo bacterial genome sequencing: millions of very short reads assembled on a desktop computer", Genome Res., Vol. 18, pp. 802-809, 2008. https://doi.org/10.1101/gr.072033.107
- Hossain, M. S., Azimi, N., Skiena, S., "Crystallizing short-read assemblies around seeds", BMC Bioinformatics, Vol. 10 (Suppl 1) S16, 2009.
- de Bruijn, N. G., "A Combinatorial Problem", Koninklijke Nederlandse Akademie v. Wetenschappen, Vol. 49, pp. 758-764, 1946.
- White III, R. A., Blainey, P. C., Fan, H. C., and Quake, S. R., "Digital PCR provides sensitive and absolute calibration for high throughput sequencing", BMC Genomics, Vol. 10, Nov 2009.
- Meyer, M. et al, "From micrograms to picograms: quantitative PCR reduces the material demands of high-throughput sequencing", Nucleic Acids Res., Vol. 36, Jan 2008.
- "Helicos BioSciences", http://www.helicosbio.com/
- "Pacific Biosciences", http://www.pacificbiosciences.com/
- 김남신, 추인선, "차세대 시퀀싱 기술의 활용", 한국생화학분자생물학회 웹진, 2009년 10월.
- "Science News, Technology, Physics, Nanotechnology, Space Science, Earth Science, Medicine", http://www.physorg.com/