Metadata language
Kurs szybkiego czytania DNA - nowoczesne techniki sekwencjonowania
Subtitle:Journal of Biotechnology, Computational Biology and Bionanotechnology
Creator:Zakrzewska- Czerwińska, Jolanta ; Kotowska, Magdalena
Publisher:Komitet Biotechnologii PAN ; Instytut Chemii Bioorganicznej PAN
Date issued/created: Description: Subject and Keywords: Abstract:Development of high-throughput DNA sequencing technologies that omit time consuming and labour intensive cloning steps have opened unprecedented possibilities in life sciences. Massive scale generation of raw sequences requires constant improvement of computational methods of data analysis. New disciplines of genomics, metagenomics and transcriptomics have emerged which revolutionize experimental approach to different fields of biology. Both basic studies, such as species evolution or microbial ecology, and applied sciences of biotechnology and medicine benefit greatly from the new tools available. In this article next-generation DNA sequencing technologies are reviewed. Information on data analysis and applications is also provided.
References:
Sanger F., Nicklen S., Coulson A. R., (1977), Proc. Natl. Acad. Sci. USA, 74, 5463-5467.
Parra G., Bradnam K., Korf I., (2007), Bioinformatics., 23, 1061-1067.
Huson D. H., Auch A. F., Qi J., Schuster S. C., (2007), Genome Res., 17, 377-386.
Smith L. M., SandersJ. Z., Kaiser R. J., Hughes P., Dodd C., Connell C. R., Heiner C., Kent S. B., Hood L. E., (1986), Nature, 321, 674-679.
Pearson T., Okinaka R. T., Foster]. T., Keim P., (2009), Infect. Genet. Evol., 9, 1010-1019.
Giuliani M. M., Adu-Bobie J., Comanducci M., Aricó B., Savino S., Santini L., Brunelli B., Bambini S., Biolchi A., Capecchi B., et al., (2006), Proc. Natl. Acad. Sci. USA, 103, 10834-10839.
Sanger F., Air G. M., Barrell B. G., Brown N. L., Coulson A. R., Fiddes C. A., Hutchison C. A., Slocom- be P. M., Smith M., (1977), Nature, 265, 687-695.
Eddy S. R., (2001), Nat. Rev. Genet., 2, 919-929.
Kerstens H. H., Crooijmans R. P., Veenendaal A., Dibbits B. W., Chin-A-Woeng T. F., den Dunnen J. T., Groenen M. A., (2009), BMC Genomics., 10, 479.
Singh B. K., Trends Biotechnol., (Epub ahead of print], PubMed PMID: 20005589.
Ansorge W., Sproat B. S., Stegemann j., Schwager C., (1986), j. Blochem. Biophys. Methods, 13, 315-323.
Idury R. M., Waterman M. S., (1995),]. Comput. Biol., 2, 291-306.
Telford J. L., (2008), Celi Host Microbe. 3, 408-416.
Sobczyński M., Mackiewicz P., Mackiewicz D., Smolarczyk K., Cebrat S., (2005), Biotechnologia, 3, 102 117.
Singh J., Behai A., Singla N.,Joshi A., Birbian N., Singh S., Bali V., Batra N., (2009), Biotechnol.]., 4, 480-494.
Paul D., Pandey G., Pandey J., Jain R. K., (2005), Trends Biotechnol., 23, 135-142.
van Vliet A. H., (2009), FEMS Microbiol. Lett., 302, 1-7.
Hugenholtz P., Tyson G. W., (2008), Nature, 455, 481-483.
Korf I., (2004), BMC Bioinformatics., 5, 59.
Schnoes A. M., Brown S. D., Dodevski I., Babbitt P. C., (2009), PLoS Comput. Biol., 5, el000605.
Flicek P., Birney E., (2009), Nat. Methods., 6(11 Suppl), S6-S12.
Overbeek R., Begley T., Butler R. M., Choudhuri J. V., Chuang H. Y., Cohoon M., de Crecy-Lagard V., Diaz N., Disz T., Edwards R., et al., (2005), Nucleic Acids Res., 33, 5691-5702.
Gorodkin J., Hofacker I. L., Torarinsson E., Yao Z., Havgaard J. H., Ruzzo W. L., (2010), Trends Biotechnol., 28, 9-19.
Meyer F., Paarmann D., D’Souza M., Olson R., Glass E. M., Kubal M., Paczian T., Rodriguez A., Stevens R., Wilke A., et al., (2008), BMC Bioinformatics, 9, 386.
Maxam A. M., Gilbert W., (1977), Proc. Natl. Acad. Sci. USA, 74, 560-564.
Stratigopoulos G., Bate N., Cundliffe E., (2004), Mol. Microbiol., 54, 1326-1334.
Sutton G. G., White O., Adams M. D., Kerlavage A. R., (1995), Genome Sci. Technol., 1, 9-19.
Eid J., Fehr A., GrayJ., Luong K., Lyle J., Otto G., Peluso P., Rank D., Baybayan P., Bettman B., et al., (2009), Science, 323, 133-138.
Donadio S., Sosio M., Lancini G., (2002), Appl. Microbiol. Biotechnol., 60, 377-380.
Fleischmann R. D., Adams M. D., White O., Clayton R. A., Kirkness E. F., Kerlavage A. R., Bult C. J., Tomb J., Dougherty B. A., Merrick J. M., et al., (1995), Science, 269, 496-512.
Ansorge W. J„ (2009), N. Biotechnol., 25, 195-203.
Crawford G. E., Holt I. E., Whittle J., Webb B. D., Tai D., Davis S., Margulies E. H., Chen Y., Bernat J. A., Ginsburg D., et al., (2006), Genome Res., 16, 123-131.
Giiell M., van Noort V., Yus E., Chen W. H., Leigh-Bell J., Michalodimitrakis K., Yamada T., Arumu- gam M., Doerks T., Kiihner S., et al., (2009), Science, 326, 1268-1271.
Venter J. C., Remington K., Heidelberg J. F., Halpern A. L., Rusch D., Eisen]. A., Wu D., Paulsen 1., Nelson K. E., Nelson W., et al., (2004), Science., 304, 66-74.
Tyson G. W., Chapman J., Hugenholtz P., Allen E. E., Ram R. J., Richardson P.M., Solovyev V. V., Rubin E. M., Rokhsar D. S., Banfield J. F., (2004), 428, 37-43.
Guttman M., Amit I., Garber M., French C., Lin M. F., Feldser D., Huarte M., Zuk 0., Carey B. W., Cas- sady J. P., et al., (2009), Nature, 458, 223-227.
Rentzsch R., Orengo C. A., (2009), Trends Biotechnol., 27, 210-219.
Ansorge W., Sproat B., Stegemann j., Schwager C., Zenke M., (1987), Nucleic Acids Res., 15, 4593-4602.
Udwary D. W., Zeigler L., Asolkar R. N., Singan V., Lapidus A., Fenical W., Jensen P. R., Moore B. S., (2007), Proc. Natl. Acad. Sci. USA. 104, 10376-10381.
Ikeda H., Ishikawa j., Hanamoto A., Shinose M., Kikuchi H., Shiba T., Sakaki Y., Hattori M., Omura S., (2003), Nat. Biotechnol., 21, 526-531.
Xie C., Tammi M. T., (2009), BMC Bioinformatics., 10, 80.
Bączkowski K., Mackiewicz P., Kowalczuk M., Banaszak]., Cebrat S., (2005), Biotechnologia, 3, 22-44.
Gilchrist D. A., Fargo D. C., Adelman K., (2009), Methods, 48, 398-408.
Kalia V. C., Lal S., Ghai R., Mandal M., Chauhan A., (2003), Trends Biotechnol., 21, 152-156.
van Tassell C. P., Smith T. P., Matukumalli L. K., Taylor J. F., Schnabel R. D., Lawley C. T., Hau- denschild C. D., Moore S. S., Warren W. C., Sonstegard T. S., (2008), Nat. Methods., 5, 247-252.
Venter J. C., Adams M. D., Myers E. W., Li P. W., Mural R. J., Sutton G. G., Smith H. O., Yandell M., Evans C. A., Holt R. A., et al., (2001), Science, 291, 1304-1351.
Cleveland T. E., Yu J., Fedorova N., Bhatnagar D., Payne G. A., Nierman W. C., Bennett J. W., (2009), Trends Biotechnol., 27, 151-157.
McPherson J. D., (2009), Nat. Methods., 6(11 SuppI), S2-5.
Venter J. C., Smith H. O., Hood L., (1996), Nature, 381, 364-366.
Gupta P. K., (2008), Trends Biotechnol., 26, 602-611.
Zhu Y., Pulukkunat D. K., Li Y., (2007), Nucleic Acids Res., 35, 2283-2294.
Williams P. G., (2009), Trends Biotechnol., 27, 45-52.
Biotechnologia, vol.91, 4 (2010)-.
Volume: Issue: Start page: End page: Resource type: Detailed Resource Type: Format: Resource Identifier: Source:Biblioteka Instytutu Chemii Bioorganicznej PAN
Language: Language of abstract: Temporal coverage: Rights:Licencja Creative Commons Uznanie autorstwa-Na tych samych warunkach 4.0
Terms of use: Digitizing institution:Instytut Chemii Bioorganiczneji Polskiej Akademii Nauk
Original in:Instytut Chemii Bioorganiczneji Polskiej Akademii Nauk
Projects co-financed by: Access: