Application of combinatorial library methods in cancer research and drug discovery

Anti-Cancer Drug Design

Volumn 12, Issue 3, 1997, Pages 145-167

  Lam, Kit S ^a  

^a UNIVERSITY OF ARIZONA   (United States)

Author keywords

Cancer targets; Combinatorial chemistry; Drug discovery; Peptide and chemical libraries

Indexed keywords

ANTINEOPLASTIC AGENT;

AFFINITY CHROMATOGRAPHY; CANCER RESEARCH; DRUG DETERMINATION; DRUG RESEARCH; DRUG TARGETING; PRIORITY JOURNAL; REVIEW;

EUKARYOTA;

EID: 0030904387     PISSN: 02669536     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Review

References (96)

1. BLACKWELL, T.K. & WEINTRAUB, H. (1990). Differences and similarities in DNA-binding preferences of MyoD and E2A protein complexes revealed by binding site selection. Science, 250, 818.
2. BLONDELLE, S.E TAKAHASHI, E, DINK, K.T. & HOUGHTEN, R.A. (1995). The antimicrobial activity of hexapeptides derived from synthetic combinatorial libraries. Journal of Applied Biotechnology, 78, 39.
3. BOYCE, R., LI, G., NESTLER, K.P., SUENAGA, T. & STILL, W.C. (1994). Peptidosteroidal receptors for opioid peptides. Sequence-selective binding using a synthetic receptor library. Journal of the American Chemical Society, 116, 7955.
4. BOYD, M.R. & PAULL, K.D. (1995). Some practical considerations and applications of the National Cancer Institute in vitro anticancer drug discovery screen. Drug Development Research, 34, 91.
5. BRENNER, S. & LERNER, R.A. (1992). Encoded combinatorial chemistry. Proceedings of the National Academy of Sciences, USA, 89, 5381.
6. BUNIN, B.A. & ELLMAN, J.A (1992). A general and expedient method for the solid phase synthesis of 1,4-benzodiazepine derivatives. Journal of the American Chemistry Society, 114, 10997.
7. BURGESS, K., LINTHICUM, D.S. & SHIN, H W. (1995). Solid-phase syntheses of unnatural biopolymers containing repeating urea units. Angewandte Chemie (International Edition in English), 34, 907.
8. BURKE, T.R. JR (1994). Protein tyrosine kinase: potential targets for anticancer drug development. Stem Cell, 12, 1.
9. 3 domain binding motif by screening a random phage display library. Journal of Biological Chemistry, 269, 24034.
10. CHO, C.Y, MORAN, E.J., CHERRY, S.R , STEPHANS, J.C. FODOR, S.P.A., ADAMS, C.L., SUNDARAM, A., JACOBS, J W & SCHULTZ, P.G. (1993). An unnatural biopolymer. Science, 261, 1303.
11. 3 domain. Journal of the American Chemical Society, 118, 287.
12. CWIRLA, S.E., PETERS, E.A., BARRETT, R.W & DOWER, W.J. (1990). Peptides on phage. A vast library of peptides for identifying ligands. Proceedings of the National Academy of Sciences, USA, 87, 6578.
13. DEPREZ, B., WILLIARD, X., BOUREL, L., COSTE, H., HYAFIL, F. & TARTAR, A. (1995). Orthogonal combinatorial chemical libraries. Journal of the American Chemical Society, 117, 5405.
14. DEVLIN, J.J., PANGANIBAN, L.C. & DEVLIN, P.E. (1990). Random peptide libraries. A source of specific protein binding molecules. Science, 249, 404.
15. DEWITT, S.H.H., KIELY, J.K., STANKOVIC, C.J., SCHROEDER, M.C , CODY, D.M R. & PAVIA, M.R. (1993). 'Diversomers': an approach to nonpeptide, nonoligomeric chemical diversity. Proceedings of the National Academy of Sciences, USA, 90, 6909.
16. DOOLEY, C.T. & HOUGHTEN, R.A. (1993). The use of positional scanning synthetic peptide combinatorial libraries for the rapid determination of opioid receptor ligands. Life Sciences, 56, 1509.
17. duBONT, D.B.A., MOREE, W.J. &. LISKAMP, R.M.J. (1996). Molecular diversity of peptidomimetics: approaches to the solid phase synthesis of peptidosulfonamides. Bioorganic Medicinal Chemistry, 4, 667.
18. ELLINGTON, A.D. & SZOSTAK, J.W. (1990). In vitro selection of RNA molecules that bind specific ligands. Nature, 346, 1104.
19. ERB, E., JANDA, K. & BRENNER, S. (1994). Recensive deconvolution of combinatorial chemical libraries. Proceedings of the National Academy of Sciences, 91, 11422.
20. FODOR, S.P.A., READ, J.L., PIRRUNG, M.C., STRYER, L., LU, A.T. & SOLAS, D (1991). Light-directed, spatially addressable parallel chemical synthesis. Science, 251, 767.
21. FRANK, R. (1992). Spot-synthesis: an easy technique for the positionally addressable, parallel chemical synthesis on a membrane support. Tetrahedron, 48, 9217.
22. FRÜCHTEL, J.S. & JUNG, G (1996). Organic chemistry on solid supports. Angewandte Chemie (International Edition in English), 35, 17.
23. FURKA, A., SEBESTYEN, F., ASGEDOM, M. & DIBO, G (1988a). Cornucopia of peptide by synthesis. Abstracts of the 14th International Congress of Biochemistry, Prague, July 10-15.
24. FURKA, A., SEBESTYEN, F., ASGEDOM, M & DIBO, G. (1988b). More peptides by less labor. Abstracts of the Xth International Symposium on Medicinal Chemistry, Budapest, August 15-19.
25. FURKA, A., SEBESTYEN, F., ASGEDOM, M. & DIBO, G. (1991). General method for rapid synthesis of multicomponent peptide mixtures. International Journal of Peptide Protein Research, 37, 487.
26. GALLOP, M.A., BARRETT, R.W, DOWER, W.J., FODOR, S.P.A. & GORDON, E.M (1994). Applications of combinatorial technologies to drug discovery. 1. Background and Peptide combinatorial libraries. Journal of Medicinal Chemistry, 37, 1233.
27. GENNARI, C., NESTLER, H.P., SALOM, B. & STILL, W.C. (1995). Synthetic receptors based on vinylogous sulphonyl peptides. Angewandte Chemie (International Edition in English), 34, 1765.
28. GEYSEN, H.M., MELVEN, R H. & BARTELING, S.J. (1984). Use of peptide synthesis to probe viral antigens for epitopes to a resolution of a single amino acid. Proceedings of the National Academy of Sciences, USA, 81, 3998.
29. GEYSEN, H.M., RODDA, S J & MASON, T.J. (1986). A priori delineation of a peptide which mimics a discontinuous antigenic determinant. Molecular Immunology, 23, 709.
30. GORDON, E.M., BARRETT, R.W, DOWER, W.J., FODOR, S.P A. & GALLOP, M.A. (1994). Applications of combinatorial technologies to drug discovery. 2. Combinatorial organic synthesis, library screening strategies, and future directions. Journal of Medicinal Chemistry, 37, 1385.
31. HAN, H. & JANDA, K.D. (1996). Azatides: solution and liquid phase syntheses of a new peptidomimetics. Journal of the American Chemical Society, 118, 2539.
32. HORWITZ, M.S.Z. & LOEB, L.A. (1986). Promoters selected from random DNA sequences. Proceedings of the National Academy of Sciences, USA, 83, 7405.
33. HOUGHTEN, R A. (1985). General method for the rapid solid-phase synthesis of large numbers of peptides: specificity of antigen-antibody interaction at the level of individual amino acids. Proceedings of the National Academy of Sciences, USA, 82, 5131.
34. HOUGHTEN, R.A., PINILLA, C., BLONDELLE, S.E., APPEL, J.R., DOOLEY, C T. & CUERVO, J.H. (1991). Generation and use of synthetic peptide combinatorial libraries for basic research and drug discovery. Nature, 354, 84.
35. HOUGHTEN, R.A., APPEL, J.R., BLONDELLE, S.E , CUERVO, J.H., DOOLEY, C T. & PINILLA, C. (1992). The use of synthetic peptide combinatorial libraries for the identification of bioactive peptides. BioTechniques, 13, 412.
36. JAYAWICKREME, C.K., GRAMINSKI, G F., QUILLAN, J.M. & LERNER, M.R. (1994). Creation and functional screening of a multi-use peptide library. Proceedings of the National Academy of Sciences, USA,91, 1614.
37. JOYCE, G.F. (1989). Amplification, mutation and selection of catalytic RNA. Gene, 82, 83.
38. KASSARJIAN, A, SCHELLENBERGER, V. & TURCK, C.W (1993). Screening of synthetic peptide libraries with radiolabeled acceptor molecules. Peptide Research, 6, 129.
39. KAWASAKI, G. (1991). Cell-free synthesis and isolation of novel genes and polypeptides. PCT International Patent Application W091/05058.
40. KERR, J.M., BANVILLE, S.C. & ZUCKERMANN, R.N (1993). Encoded combinatorial peptide libraries containing non-natural amino acids. Journal of the American Chemical Society, 115, 2529.
41. KHMELNITSKY, Y.L., MICHELS, P.C., DORDICK, J.S. & CLARK, D.S. (1996) Generation of solution phase libraries or organic molecules by combinatorial biocatalysis. In Molecular Diversity and Combinatorial Chemistry. Chaiken, I.M., Janda, K.D. (eds), p. 145. American Chemical Society: Washington, DC.
42. KHOSLA, C. & ZAWADA, R.J.X (1996) Generation of polyketide libraries via combinatorial biosynthesis. Trends in Biotechnology, 14, 335.
43. LAM, K.S. (1995). Synthetic peptide libraries. In Molecular Biology and Biotechnology: A Comprehensive Desk Reference. Meyer, R.A. (ed.), p. 880. VCH Publisher: New York.
44. LAM, K.S (1996). Synthetic peptide and nonpeptide combinatorial libraries. In Encyclopedia of Molecular Biology and Molecular Medicine. Meyer, R.A. (ed.), vol. 5, p. 516. VCH Publisher: New York.
45. LAM, K.S. & LEBL, M. (1992). Streptavidin and avidin recognize peptide ligands with different motifs. Immunomethods, 1, 11.
46. LAM, K.S. & LEBL, M (1994). Selectide technology: bead-binding screening. Methods: A Companion to Methods in Enzymology, 6, 372.
47. LAM, K.S. & LEBL, M (1996). Combinatorial library based on the one-bead-one-compound concept. In Peptide and Non-Peptide Libraries: A Handbook. Jung, G. (ed.), p. 173. VCH Publisher: Weinheim.
48. LAM, K S. & SALMON, S.E. (1992). Random bio-oligomer library, a method of synthesis thereof, and a method of use thereof. PCT International Patent Application W092/991.
49. LAM, K S. & SALMON, S.E. (1996). Method of screening a peptide library. United States Patent Number 5,510,240.
50. LAM, K.S. & WU, J. (1994). Selectide technology: substrate motif identification for post-translational modifications. Methods: A Companion to Methods in Enzymology, 6, 401.
51. LAM, K.S., SALMON, S.E., HERSH, E.M., HRUBY, V.J., KAZMIERSKI. WM. & KNAPP, R.J. (1991). One-bead, one-peptide: a new type of synthetic peptide library for identifying ligand-binding activity. Nature, 354, 82.
52. LAM, K.S.. ZHAO, Z.G., WADE, S., KRCHNAK, V. & LEBL, M. (1994). Identification of small peptides that interact specifically with a small organic dye. Drug Development Research, 33, 157.
53. LAM, K.S., LOU, Q., ZHAO, Z.G., CHEN M.L., SMITH, J., PLESHKO, E. & SALMON, S.E. (1995a). Idiotype-specific peptides bind to two murine B-cell lymphoma lines, inducing signal transduction. Biomedical Peptides, Proteins and Nucleic Acids, 1, 205.
54. LAM, K.S., WADE, S., ABDUL-LATIF, F. & LEBL, M. (1995b). Application of a dual color detection scheme in the screening of a random combinatorial peptide library. Journal of Immunology Methods, 180, 219.
55. LAM, K.S., WU, J. & LOU, Q. (1995c). Identification and characterization of anovel peptide substrate specific for src-family tyrosine kinase. International Journal of Protein Peptide Research, 45, 587.
56. LAM, K.S., LEBL, M. & KRCHNAK, V (1997). The 'one-bead-one-compound' combinatorial library method. Chemical Reviews, in press.
57. LEBL, M., KRCHNAK, V, SALMON, S.E & LAM, K.S. (1994). Screening of completely random one-bead one-peptide libraries for activities in solution. Methods: A Companion to Methods in Enzymology, 6, 381.
58. LEBL, M., KRCHNAK, V., SEPETOV, N.F , SELIGMANN, B., STROP, P., FELDER, S. & LAM, K.S. (1995). One-bead-One structure combinatorial libraries. Biopolymers (Peptide Science), 37, 177.
59. LEVITZKI, A. & GAZIT, A (1995). Tyrosine kinase inhibition: an approach to drug development. Science, 267, 1782.
60. c-src protein tyrosine kinase. Bioorganic and Medicinal Chemistry, 5, 677.
61. MAEJI, N.J., BRAY, A M. & GEYSEN. H.M. (1990). Multi-pin peptide synthesis strategy for T cell determinant analysis. Journal of Immunology Method, 134, 23.
62. MELDAL, M. & SVENDSEN, I. (1995). Direct visualization of enzyme, inhibitors using a portion mixing inhibitor library containing a quenched fluorogenic peptide substrate. Part 1. Inhibitors for subtilisin Carlsberg. Journal of the Chemical Society, Perkin Transactions 1, 12, 1591.
63. MELDAL, M., SVENDSEN, I., BREDDAM, K. & AUZANNEAU, F.I. (1994). Portion-mixing peptide libraries of quenched fluorogenic substrates for complete subsite mapping of endoprotease specificity. Proceedings of the National Academy of Sciences, USA, 91, 3314.
64. MENDELSOHN, I, HOWLEY, P.M., ISRAEL, M.A. & LIOTTA, L.A. (EDS) (1995). The Molecular Basis of Cancer. W.B. Saunders Co.: Philadelphia, PA.
65. MERRIEFIELD, R.B. (1963). Solid phase peptide synthesis. 1. The synthesis of a tetrapeptide. Journal of the American Chemical Society, 85, 2149.
66. MORAN, E.J., SARSHAR, S., CARGILL, J.F, SHAHBAZ, M.M., LIO, A., MJALLI, A.M.M & ARMSTRONG, R.W. (1995). Radio frequency tag encoded combinatorial library method for the discovery of tripeptide-substituted cinnamic acid inhibitors of the protein tyrosine phosphatase PTP1B. Journal of the American Chemical Society, 117, 10787.
67. NEEDELS, M.C., JONES, D.G, TATE, E.H., HEINKEL, G.L., KOCHERSPERGER, L.M., DOWER, W.J., BARRETT, R.W & GALLOP, M A. (1993). Generation and screening of an oligonucleotide-encoded synthetic peptide library. Proceedings of the National Academy of Sciences, USA, 90, 10700.
68. NESTLER, H P , BARTLETT, P.A. & STILL, WC (1994). A general method for molecular tagging of encoded combinatorial chemistry libraries. Journal of Organic Chemistry, 59, 4723.
69. NICOLAOU, K C., XIAO, X.Y., PARANDOOSH, Z., SENYEI, A. & NOVA, M.P. (1995). Radiofrequency encoded combinatorial chemistry. Angewandte Chemie (International Edition in English), 34, 2289.
70. NIKOLAIEV, V., STIERANDOVA, A., KRCHNAK, V., SELIGMAN, B , LAM, K.S., SALMON, S E. & LEBL, M. (1993). Peptide-encoding for structure determination of nonsequenceable polymers within libraries synthesized and tested on solid phase supports. Peptide Research, 6, 161.
71. OHLMEYER, M.H.J., SWANSON, R N., DILLARD, L.W., READER, J.C., ASOULINE, G., KOBAYASHI, R., WIGLER, W. & STILL, W.C. (1993). Complex synthetic chemical libraries indexed with molecular tags. Proceedings of the National Academy of Sciences, USA, 90, 10922.
72. OLIPHANT, A.R., NUSSBAUM, A.L. & STRUHL, K. (1986). Cloning of random-sequence oligodeoxynucleotides. Gene, 44, 177.
73. PARMLEY, S.F. & SMITH, G.P. (1988). Antibody-selectable filamentous fd phage vectors: affinity purification of target genes. Gene, 73, 305.
74. PENNINGTON, M E , LAM, K.S. & CRESS, A.E. (1996). The use of a combinatorial library method to isolate human tumor cell adhesion peptides. Molecular Diversity, 2, 19.
75. POLLOCK, R. & TREISMAN, R. (1990). A sensitive method for the determination of protein-DNA binding specificities. Nucleic Acids Research, 18, 6197.
76. POWIS, G. &. WORKMAN, p. (1994). Signalling targets for the development of cancer drugs. Anti-Cancer Drug Design, 9, 263.
77. REGGELIN, M. & BRENIG, V. (1996). Towards polyketide libraries: iterative, asymmetric aldol reactions on a solid support. Tetrahedron Letters, 37, 6851.
78. SALMON, S.E., LAM, K.S., LEBL, M., KANDOLA, A., KHATTRI, P.S., WADE, S , PATEK, M., KOCIS, P., KRCHNAK, V., THORPE, D. & FELDER, S. (1993). Discovery of biologically active peptides in random libraries: solution phase testing after staged orthogonal release from resin beads. Proceedings of the National Academy of Sciences, USA, 90, 11708.
79. SALMON, S.E., LIU-STEVENS, R.H., ZHAO, Y, LEBL, M , KRCHNAK, V., WERTMAN, K., SEPETOV, N. & LAM, K.S. (1996). High volume cellular screening for anticancer agents with combinatorial chemical libraries: a new methodology. Molecular Diversity, 2, 57.
80. SCHATZ, P.J. (1993). Use of peptide libraries to map the substrate specificity of a peptide-modifying enzyme: a 13 residue consensus peptide specifies biotinylation in Escherichia coli. Biotechnology, 11, 1138.
81. SCOTT, J.K. & SMITH, G P. (1990). Searching for peptide ligands with an epitope library. Science, 249, 386.
82. SEPETOV, N., ISSAKOVA, O., KRCHNAK, V. & LEBL, M. (1995). Peptide sequencing using mass spectrometry. United States Patent Number 5,470,753.
83. SIMON, R.J., KAINA, R.S., ZUCKERMANN, R.N., HUEBNER, V.D., JEWELL, D.A., BANVILLE, S, NG, S., WANG, L., ROSENBERG, S., MARLOWE. C.K , SPELLMEYER, D.C., TAN, R , FRANKEL, A.D, SANTI, D.V., COHEN, F.E. & BARTLETT, P.A. (1992). Peptoids: a modular approach to drug discovery. Proceedings of the National Academy of Sciences, USA, 89, 9367.
84. SMITH, M.H., LAM, K.S., HERSH, E.M., LEBL, M. & GRIMES, W.J. (1994). Peptide sequences binding to MHC class I proteins. Molecular Immunology, 31, 1431.
85. 2 domains recognize specific phosphopeptide sequences. Cell, 72, 767.
86. SONGYANG, Z, CARRWAY, K.L., III, ECK, M.J., HARRISON, S C , FELDMAN, R.A., MODAMMADI, M., SCHLESSINGER, J., HUBBARD, S R., SMITH, D.P., ENG, C., LORENZO, M.J., PONDER, B.A.J., MAYER, B.J. & CANTLEY, L.C. (1995). Cataltyic specificty of protein tyrosine kinases is critical for selective signalling. Nature, 373, 536.
87. SPARKS, A B., QUILLIAM, L.A., THORN, J.M., DER, C.J. & KAY, B K. (1994). Identification and characterization of Src SH3 ligands from phage-displayed random peptide libraries. Journal of Biological Chemistry, 269, 23853.
88. TEGGE, W., FRANK, R., HOFMANN, F. & DOSTMANN, W.R.G. (1995). Determination of cyclic nucleotide-dependent protein kinase substrate specificity by the use of peptide libraries on cellulose paper. Biochemistry, 34, 10569.
89. THOMPSON, L.A & ELLMAN, J.A (1996). Synthesis and applications of small molecule libraries. Chemistry Review, 96, 555.
90. TUERK, C. & GOLD, L. (1990). Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science, 249, 505.
91. VAGNER, J. BARANY, G., LAM, K.S , KRCHNAK, V., SEPETOV, N F., OSTREM, J.A., STROP, P , & LEBL, M. (1996). Enzyme-mediated spatial segregation on individual polymeric support beads: application to generation and screening of encoded combinatorial libraries. Proceedings of the National Academy of Sciences, USA, 93; 8194.
92. WENNEMERS, H. & STILL, W.C. (1994). Peptide complexation in water. Sequence-selective binding with simple dye molecules. Tetrahedron Letters, 35, 6413.
93. WU, J., MA, Q.N. & LAM, K.S. (1994). Identifying substrate motifs of protein kinases by a random library approach. Biochemistry, 33, 14825.
94. YOUNGQUIST, S.R., FUENTES, G.R., LACEY, M.P. & KEOUGH, T. (1994). Matrix-assisted laser desorption ionization for rapid determination of the sequences of biologically active peptides isolated from support-bound combinatorial peptide libraries. Rapid Communications in Mass Spectrometry, 8, 77.
95. 3 domains. Cell, 76, 933.
96. ZUCKERMANN, R.N., KERR, J.M., SIANI, M.A., BANVILLE, S.C. & SANTI, D.V (1992). Identification of highest-affinity ligands by affinity selection from equimolar peptide mixtures generated by robotic synthesis. Proceedings of the National Academy Sciences, USA, 89, 4505.