History of Sequencing by Synthesis (=SbS, especially cycled SbP & SbL)
(see also plone history & polonies)
Whitfeld PR. 1954. Biochem J 58, 390-6. (SbD = sequencing by degradation)
A method for the determination of nucleotide sequence in polyribonucleotides.
Sanger, F, Nicklen, S & Coulson, AR. 1977. PNAS 74, 12 5463-7. DNA sequencing with chain-terminating inhibitors. (SbS & SbP= Sequencing by Polymerase (in a way), but more accurately termed SbG= Sequencing by Gel electrophoresis)
Church GM & Gilbert W. 1984. PNAS 81: 1991-5.
Genomic Sequencing. (Cycles of hybridization and imaging of a multiplexed 2D solid phase).
Whiteley NM, Hunkapillar MW, Glazer AN. 1984-9 Patent US-4,883,750. Detection of specific sequences in nucleic acids. (Ligation Assay)
Melamede RJ. 1985-9. Patent US-4,863,849
Automatable process for sequencing nucleotide. (SbP)
Landegren U & Hood L. 1988-91 Patent US-4,988,617. Method of detecting a nucleotide change in nucleic acids (Ligation assay)
Hyman ED. Anal Biochem. 1988 Nov 1;174(2):423-36.
A new method of sequencing DNA. (Polymerase release of pyrophosphate)
Drmanac R, Labat I, Brukner I, Crkvenjakov R. 1989. Sequencing of megabase plus DNA by hybridization: theory of the method. (SbH = sequencing by hybridization). See also Yugoslav patent application 570 (1987).
Drmanc R & Crkvenjakov R. 1990 Scientia Yugoslavica 16:97-107. Prospects for a miniaturized simplified and frugal Human Genome Project.
Tsien et al. 1991 Method for DNA sequencing. Patent PCT WO 91/06678.
Drmanac R. 1992-2002. Patent US-6,401,267. Methods and compositions for efficient nucleic acid sequencing (Cycled SbL, Combinatorial ligation of two sets of oligonucleotides on a DNA template)
Canard B and Sarfati RS. 1994. Gene 148: 1-6. DNA polymerase fluorescent substrates with reversible 3'-tags.
Cheesman PC. 1991-4.
Method for sequencing polynucleotides. (SbP 3'blocked)
Metzker ML et al. 1994 ; Nucleic Acids Res. 22: 4259.
Termination of DNA synthesis by novel 3'-modified-deoxyribonucleoside 5'-triphosphates. (SbP)
Brenner S. 1994-7. Patent US-5,604,097. Methods for sorting polynucleotides using oligonucleotide tags (cyclic SbL + SbD)
Church GM. 1997-2002. Patent US-6,432,360 Replica amplification of nucleic acid arrays. (SbH, SbP, SbL)
Macevicz SC. 1998 Patent US-5,750,341.
DNA sequencing by parallel oligonucleotide extensions. (Cycled SbL)
Rosenthal A & Brenner S. 1994-2000. Patent US-6,087,095, DNA sequencing method
Ronaghi, M., Uhlen, M., and Nyren, P. 1998. Science 281: 363. A sequencing method based on real-time pyrophosphate.
Ju J 2000-2003 Patent US-6,664,079 Massive parallel method for decoding DNA and RNA (SbP)
Mitra RD, Shendure J, Olejnik J, Olejnik EK, and Church GM 2003
Analyt. Biochem. 320:55-65.
Fluorescent in situ Sequencing on Polymerase Colonies. (SbP)
Drmanac R. 2003-4. PCT/US2004/006022 Filed 2/26/04 Provisional filed 2/25/03 (Cycles of probe ligation & strip off on random DNA arrays)
Shendure, et al. 2005. Science 4-Aug. 309:1728-32.
Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome.
(SbL = by Ligase)
Smith DR & McKernan K. 2006-7. Patent Appl US-20070026438. Methods of producing and sequencing modified polynucleotides. (SbP, phosphorothiolate)
Smith DR & Malek JA. 2006-7. Patent Appl. US-20070172839. Asymmetrical adapters and methods of use thereof (SbL)
Drmanac R. 2006-7. Patnet Appl. WO2007/133831 A2; PCT/US2007/062825 (Combinatorial probe-anchor ligation on inserted adapters -- cPAL)
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