Combinatorial chemistry technology: method – library – apparatus – Method of creating a library
Reexamination Certificate
2011-07-05
2011-07-05
Lundgren, Jeffrey S. (Department: 1639)
Combinatorial chemistry technology: method, library, apparatus
Method of creating a library
C506S007000, C506S013000, C435S006120
Reexamination Certificate
active
07972992
ABSTRACT:
The present invention provides methods of synthesizing a molecule comprising a functional moiety which is operatively linked to an encoding oligonucleotide. The methods include providing an initiator compound comprising an initial functional moiety comprising n building blocks, wherein the initial functional moiety comprises at least one reactive group, and is operatively linked to an initial oligonucleotide; reacting the initiator compound with a building block comprising at least one complementary reactive group, under conditions suitable for reaction of the complementary reactive group to form a covalent bond; and reacting the initial oligonucleotide with an incoming oligonucleotide corresponding to the building block in the presence of an enzyme which catalyzes ligation of the initial oligonucleotide and the incoming oligonucleotide, under conditions suitable for ligation of the incoming oligonucleotide and the initial oligonucleotide to form an encoding oligonucleotide.
REFERENCES:
patent: 5573905 (1996-11-01), Lerner et al.
patent: 5708153 (1998-01-01), Dower et al.
patent: 5723598 (1998-03-01), Lerner et al.
patent: 6060596 (2000-05-01), Lerner et al.
patent: 2005/0158765 (2005-07-01), Morgan et al.
patent: 2007/0042401 (2007-02-01), Morgan et al.
patent: 2007/0224607 (2007-09-01), Morgan et al.
patent: 2009/0062147 (2009-03-01), Morgan et al.
patent: WO 91/05058 (1991-04-01), None
patent: WO 92/02536 (1992-02-01), None
patent: WO-93/06121 (1993-04-01), None
patent: WO-93/20242 (1993-10-01), None
patent: WO 94/13623 (1994-06-01), None
patent: WO 00/23458 (2000-04-01), None
patent: WO 02/074929 (2002-09-01), None
patent: WO 02/074929 (2002-09-01), None
patent: WO-02/102820 (2002-12-01), None
patent: WO 02/103008 (2002-12-01), None
patent: WO 02/103008 (2002-12-01), None
patent: WO-03/078050 (2003-09-01), None
patent: WO-03/078445 (2003-09-01), None
patent: WO-03/078446 (2003-09-01), None
patent: WO 03/078625 (2003-09-01), None
patent: WO 03/078625 (2003-09-01), None
patent: WO-03/078626 (2003-09-01), None
patent: WO-03/078627 (2003-09-01), None
patent: WO 03/101972 (2003-12-01), None
patent: WO-2004/001042 (2003-12-01), None
patent: WO-2004/009814 (2004-01-01), None
patent: WO 2004/013070 (2004-02-01), None
patent: WO 2004/013070 (2004-02-01), None
patent: WO 2004/016767 (2004-02-01), None
patent: WO 2004/016767 (2004-02-01), None
patent: WO-2004/024929 (2004-03-01), None
patent: WO-2004/039825 (2004-05-01), None
patent: WO 2004/039825 (2004-05-01), None
patent: WO 2004/039825 (2004-05-01), None
patent: WO-2004/056994 (2004-07-01), None
patent: WO 2004/074429 (2004-09-01), None
patent: WO 2004/074429 (2004-09-01), None
patent: WO-2004/074501 (2004-09-01), None
patent: WO-2004/083427 (2004-09-01), None
patent: WO-2004/099441 (2004-11-01), None
patent: WO-2004/110964 (2004-12-01), None
patent: WO 2005/003778 (2005-01-01), None
patent: WO-2005/026387 (2005-03-01), None
patent: WO-2005/058479 (2005-06-01), None
patent: WO-2005/078122 (2005-08-01), None
patent: WO-2005/090566 (2005-09-01), None
patent: WO-2006/053571 (2006-05-01), None
Ansoy, K., et al. “Some reactions of 2,4,6-trichloro-s-triazine.”Journal of Qafqaz University. 1997; 1:131-7.
Brenner, S., et al. “Encoded combinatorial chemistry.”Proc Natl Acad Sci USA. Jun. 15, 1992; 89(12):5381-3.
Halpin, D., et al. “DNA display I. Sequence-encoded routing of DNA populations.”PLoS Biology. 2004; 2(7):1015-21.
Halpin, D., et al. “DNA display II. Genetic manipulation of combinatorial chemistry libraries for small-molecule evolution.”PLoS Biology. 2004; 2(7):1022-30.
Halpin, D., et al. “DNA display III. Solid-phase organic synthesis on unprotected DNA.”PloS Biology. 2004; 2(7):1031-8.
Kinoshita, Y., et al. “Enzymatic synthesis of code regions for encoded combinatorial chemistry (ECC).”Nucleic Acids Symp Ser.1995; (34):201-2.
Needels, M., et al. “Generation and screening of an oligonucleotide-encoded synthetic peptide library.”Proc Natl Acad Sci USA. Nov. 15, 1993; 90(22):10700-4.
Nielsen, J., et al. “Toward chemical implementation of encoded combinatorial libraries.”Methods: A Companion to Methods in Enzymology. 1994; 6:361-71.
Nielsen, J., et al. “Synthetic methods for the implementation of encoded combinatorial chemistry.”J. Am. Chem. Soc.1993; 115:9812-3.
Brenner, Sydney et al., “Encoded combinatorial chemistry,”Proc. Natl. Acad. Sci. USA, vol. 89:5381-5383 (1992).
Calderone, Christopher T. et al., “Directing Otherwise Incompatible Reactions in a Single Solution by Using DNA-Templated Organic Synthesis,”Angew. Chem. Int. Ed., vol. 41(21):4104-4108 (2002).
Calderone, Christopher T. et al., “Nucleic-acid-templated synthesis as a model system for ancient translation,”Current Opinion in Chemical Biology, vol. 8:645-653 (2004).
Czlapinski, Jennifer L. et al., “Nucleic Acid Template-Directed Assembly of Metallosalen-DNA Conjugates,”J. Am. Chem. Soc., vol. 123:8618-8619 (2001).
Gartner, Zev J. et al., “DNA-Templated Organic Synthesis and Selection of a Library of Macrocycles,”Science, vol. 305:1601-1605 (2004).
Gryaznov, Sergei M. et al., “Chemical Ligation of Oligonucleotides in the Presence and Absence of a Template,”J. Am. Chem. Soc., vol. 115:3808-3809 (1993).
Kanan, Matthew W. et al., “Reaction discovery enabled by DNA-templated synthesis and in vitro selection,”Nature, vol. 431:545-549 (2004).
Li, Xiaoyu et al., “Translation of DNA into SyntheticN-Acyloxazolidines,”J. Am. Chem. Soc., vol. 126:5090-5092 (2004).
International Search Report for Application No. PCT/US2006/041356, dated Aug. 21, 2007.
International Search Report for Application No. PCT/US2006/022555, dated Mar. 23, 2007.
International Search Report for Application No. PCT/US2004/042964, dated Aug. 16, 2005.
Jäschke et al. “Synthesis and properties of oligodeoxyribonucleotide-polyethylene glycol conjugates,”Nucleic Acids Researchvol. 22(22):4810-4817 (1994).
Shchepinov et al. “Trityl tags for encoding in combinatorial synthesis,”Tetrahedronvol. 56:2713-2724 (2000).
Behrens et al. “Synthesis of achiral linker reagents for direct labeling of oligonucleotides on solid supports.” Nucleosides, Nucleotides and Nucleic Acids vol. 18(2):291-305 (19999).
Acharya Raksha A.
Arico-Muendel Christopher C.
Benjamin Dennis
Centrella Paolo A.
Clark Matthew
Laccotripe Zacharakis Maria
Lundgren Jeffrey S.
McCarter & English LLP
Nagle Deborah L.
Praecis Pharmaceuticals Inc.
LandOfFree
Methods for synthesis of encoded libraries does not yet have a rating. At this time, there are no reviews or comments for this patent.
If you have personal experience with Methods for synthesis of encoded libraries, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Methods for synthesis of encoded libraries will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-2707156