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Przegląd aktualnie dostępnych technologii sekwencjonowania kwasów nukleinowych

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Warianty tytułu
Języki publikacji
PL
Abstrakty
PL
Sekwencjonowanie DNA-Seq wykorzystuje się do sekwencjonowania genomów, eksomów, epigenomu, targetowego resekwencjonowania fragmentów genomów, genotypowania. RNA-Seq można podzielić na: sekwencjonowanie całego transkryptomu, mRNA (mRNA-Seq) i małych RNA (smRNA-Seq). Jest wykorzystywane w badaniach z zakresu genomiki funkcjonalnej, różnicowej analizy ekspresji genów, alternatywnego splicingu i analizy wariantów.
Rocznik
Tom
Strony
14--21
Opis fizyczny
Bibliogr. 34 poz., rys.
Twórcy
  • Krajowe Centrum Roślinnych Zasobów Genowych, Instytut Hodowli i Aklimatyzacji Roślin – Państwowy Instytut Badawczy
Bibliografia
  • 1. Watson J.D., Crick F. H.: Molecular structure of nucleic acids: a structure for deoxyribose nucleic acid. "Nature", 1953, 171, 737-738.
  • 2. Sanger F., Thompson E.: The amino-acid sequence in the glycyl chain of insulin. 2. The investigation of peptides from enzymic hydrolysates. "Biochemical Journal", 1953, 53, 366-374.
  • 3. Holley R.W., Apgar J., Everett G.A. et al.: structure of a ribonucleic acid. "Science", 1965, 1462-1465.
  • 4. Jou W.M., Haegeman G., Ysebaert M., Fiers W.: Nucleotide sequence of the gene coding for the bacteriophage MS2 coat protein. "Nature", 1972, 237, 82-88.
  • 5. Sanger F., Coulson AR.: A rapid method for determining sequences in DNA by primed synthesis with DNA polymerase. "Journal of molecular biology", 1975, 94, 441-448.
  • 6. Maxam, A.M., Gilbert W.: A new method for sequencing DNA. "Proceedings of the National Academy of Sciences", 1977, 74, 560-564.
  • 7. Nyrén P., Pettersson B., Uhlén, M.: Solid phase DNA minisequencing by an enzymatic luminometric inorganic pyrophosphate detection assay. "Analytical Biochemistry", 1993, 208, 171-175.
  • 8. Voelkerding K.V., Dames S.A., Durtschi J.D.: Next-generation sequencing: from basic research to diagnostics. "Clinical Chemistry", 2009, 55, 641-658.
  • 9. Balasubramanian S.: Solexa sequencing: Decoding genomes on a population scale. "Clinical chemistry", 2015, 61, 21-24.
  • 10. Zimmermann J., Voss H., Schwager C., Stegemann J., Ansorge W.: Automared Sanger dideoxy sequencing reaction protocol. "FEBS Letters", 1988, 233, 432-436.
  • 11. Luckey J.A., Drossman H., Kostichka A. J. et al.: High speed DNA sequencing by capillary electrophoresis. "Nucleic Acids Research", 1990, 18, 4417-4421.
  • 12. Wang Z., Gerstein M., Snyder M.: RNA-Seq: a revolutionary tool for transcriptomics. "Nature Reviews Genetics", 2009, 10, 57-63.
  • 13. Shendure J., Balasubramanian S., Church G.M. et al.: DNA sequencing at 40: past, present and future. "Nature", 2017, 550, 345-353.
  • 14. Head S.R., Komori H.K., LaMere S.A. et al.: Library construction for next-generation sequencing: overviews and challenges. "Biotechniques", 2014, 56, 61-77.
  • 15. Mamanova L., Coffey A.J., Scott C.E. et al.: Target­enrichment strategies for next-generation sequencing. "Nature Methods", 2010, 7, 111-118.
  • 16. Liang W.S., Stephenson K., Adkins J. et al.: Whole exome library construction for next generation sequencing. "Disease Gene Identification", 2018, 163-174.
  • 17. Gandhi M.J., Ferriola D., Huang Y., Duke J.L., Monos D.: Targeted next-generation sequencing for human leukocyte antigen typing in a clinical laboratory: metrics of relevance and considerations for its successful implementation. "Archives of Pathology and Laboratory Medicine", 2017, 141, 806-812.
  • 18. Goodwin S., McPherson J.D., McCombie W. R.: Coming of age: ten years of next-generation sequencing technologies. "Nature Review Genetics", 2016, 17, 333-351.
  • 19. Illumina. Benchtop Sequencers. https://www.illumina. com/systems/sequencing-platforms.html.
  • 20. ThermoFisher. lon GeneStudio S5 Next-Generation Sequencing Series Specifications. https://www.thermofisher.com/us/en/home/life-science/sequencing/next-generation-sequencing/ion-torrent-next-generationsequencing-workflow/ion-torrent-nextgeneration-sequencing-runsequence/ion-s5-ngs­targeted -sequencing/ion-s5-specifications.html.
  • 21. ThermoFisher. Ion Torrent Next-Generation Sequencing Instruments. https://www.thermofisher.com/us/en/home/life-science/sequencing/nextgeneration­sequencing/ion-torrent-next-generation-sequencing-workflow/ion-torrent-next-generation sequencing-run-sequence.html.
  • 22. Deamer D., Akeson M., Branton D.: Three decades of nanopore sequencing. "Nature Biotechnology", 2016, 34, 518-524.
  • 23. Weirather J.L., de Cesare M., Wang Y. et al.: Comprehensive comparison of Pacific Biosciences and Oxford Nanopore Technologies and their applications to transcriptome analysis. "F1000Research", 2017, 6.
  • 24. Carter J.M., Hussain S.: Robust long-read native DNA sequencing using the ONT CsgG Nanopore system. "Wellcome Open Research", 2017, 2.
  • 25. Sutton J.M., Millwood J.D., Fierst J.L.: Optimizing experimental design for genome sequencing and assembly with Oxford Nanopore Technologies. "Gigabyte", 2021, 2021, 1-26.
  • 26. Ip C.L., Loose M., Tyson J.R. et al.: MinION Analysis and Reference Consortium: Phase 1 data release and analysis. "F1000Research", 2015, 4.
  • 27. Pollard M.O., Gurdasani D., Mentzer A.J. et al.: Long reads: their purpose and place. "Human Molecular Genetics", 2018, 27, R234-R241.
  • 28. Logsdon G.A., Vollger M.R, Eichler E.E.: Long-read human genome sequencing and its applications. "Nature Reviews Genetics", 2020, 21, 597-614.
  • 29. Oikonomopoulos S., Wang Y.C., Djambazian H., Badescu D., Ragoussis J.: Benchmarking of the Oxford Nanopore MinION sequencing for quantitative and qualitative assessment of cDNA populations. "Scientific Reports", 2016, 6, 1-13.
  • 30. Byrne A, Beaudin A.E., Olsen H.E. et al.: Nanopore long-read RNAseq reveals widespread transcriptional variation among the surface receptors of individual B cells. "Nature Communications", 2017, 8, 1-11.
  • 31. Eid J., Fehr A., Gray J. et al.: Real-time DNA sequencing from single polymerase molecules. "Science", 2009, 323, 133-138.
  • 32. Hu T., Chitnis N., Monos D., Dinh A.: Next-generation sequencing technologies: An overview. "Human Immunology", 2021.
  • 33. Rhoads A., Au K.F.: PacBio sequencing and its applications. "Genomics, Proteomics & Bioinformatics", 2015, 13, 278-289.
  • 34. Wenger A.M., Peluso P., Rowell W.J. et al.: Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome. "Nature Biotechnology", 2019, 37, 1155-1162.
Uwagi
PL
Opracowanie rekordu ze środków MNiSW, umowa Nr 461252 w ramach programu "Społeczna odpowiedzialność nauki" - moduł: Popularyzacja nauki i promocja sportu (2021).
Typ dokumentu
Bibliografia
Identyfikator YADDA
bwmeta1.element.baztech-70d79f47-2620-4956-a77e-57ddca914269
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