Computer-aided design of vaccines
Sobolev B.N.1 , Poroikov V.V.1 , Olenina L.V.1 , Kolesanova E.F.1 , Archakov A.I.1 1. Institute of Biomedical Chemistry Rus. Acad. Med. Sci Section: Miscellaneous PubMed Id: 14562679
Year: 2003 Volume: 49 Issue : 4 Pages: 309-332 With the modern molecular biology techniques, it has been possible to detect, isolate and clone biological macromolecules, which could be used as immunogenes in artificial vaccine constructs. In the post-genomic era, the prospective immunogenic components are searched using bionformatic tools and proteomic technologies. Today it is quite realistic to combine the artificial vaccine constructs from the preselected molecular components. Existing computational methods are able to detect the potential immunogenes in genomic sequences, predict their characteristics and subcellular location. The set of methods is designed to predict the T- and B-epitopes that can be used as components of minimal vaccine constructs. The variety of systems for production and delivery of vaccines are developed and tested. These include transgenic plants, bacterial and viral vectors, DNA molecules etc. Several informational resources provide free access to molecular immunology data and deliver services on prediction of antigenic features. Several artificial vaccines have alredy been launched, but much more preparations are under preclinical and clinical trials. Computer-aided design of vaccines may significantly decrease time and costs required for their development. Modern bioinformatic technologies are now employed for discovery of more effective and potent vaccine.Download PDF:
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Sobolev B.N., Poroikov V.V., Olenina L.V., Kolesanova E.F., Archakov A.I. (2003) Computer-aided design of vaccines. Biomeditsinskaya Khimiya, 49 (4), 309-332.
Sobolev B.N. et al. Computer-aided design of vaccines // Biomeditsinskaya Khimiya. - 2003. - V. 49. -N 4. - P. 309-332.
Sobolev B.N. et al., "Computer-aided design of vaccines." Biomeditsinskaya Khimiya 49.4 (2003): 309-332.
Sobolev, B. N., Poroikov, V. V., Olenina, L. V., Kolesanova, E. F., Archakov, A. I. (2003). Computer-aided design of vaccines. Biomeditsinskaya Khimiya , 49(4), 309-332.
References Show
Makela P.H. (2000) FEMS Microbiol. Rev., 24, 9- 20. Scholar google search Liljeqvist S., Stahl S.J. (1999) Biotechnol, 73, 1- 33. Scholar google search Ben- Yedidia Т., Arnon R. (1997) Curr. Opin. Biotechnol., 8, 442- 448. Scholar google search Rappuoli R., Guidice G. del (1999) In: Vaccine. From Concept to Clinic, CRC Press LLC, Boca Raton, Boston, London, New York, Washington DC, pp.5- 17. Scholar google search Rappuoli R. (2000) Curr. Opin. Microbiol. 3,445- 450. Scholar google search Andre Е.Е. (1990) Vaccine, 8 Suppl, S74- 78. Scholar google search Kao J.H., Chen D.S. (2002) Lancet Infect. Dis., 2, 395- 403. Scholar google search Parenti D. (1999) Conn. Med., 63, 570. Scholar google search http://www.lymesite.com/vaccine.htm. Scholar google search Greco D., Salmaso S., Mastrantonio P., et al. (1966) N. Engl. J. Med., 334, 341- 348. Scholar google search Hyams К.С. (2002) Curr. Gastroenterol. Rep., 4, 302- 307. Scholar google search Schultz A.M., Bradac J.A. (2001) AIDS, 15, (Suppl 5), S147- 158. Scholar google search Mooij P., Heeney J.L. (2001) Vaccine, 20, 304- 321. Scholar google search Migasena S., Heppner D.G., Kyle D.E., et al. (1997) Acta Trap., 67, 215- 227. Scholar google search Kandel R., Hartshorn K.L. (2001) BioDrugs, 15, 303- 323. Scholar google search Jackson D., Cadman A., Zurcher Т., Barclay W.S. (2002) J. Virol., 76, 11744- 11747. Scholar google search Jeon S.H., Ben- Yedidia Т., Arnon R. (2002) Vaccine, 20, 2772- 2780. Scholar google search Agger E.M., Andersen P. (2002) Vaccine, 21, 7- 14. Scholar google search Doherty T.M., Olsen A.W., van Pinxteren L., Andersen P. (2002) Infect. Immun., 70,3111- 3121. Scholar google search Gor D.O., DingX, Li Q., Schreiber J.R., et al. (2002) Infect Immun., 70, 5589- 5595. Scholar google search Briles D.E., Hollingshead S.K., King J. et al. (2000) J. Infect. Dis., 182, 1694- 1701. Scholar google search Volpina O.M., Yarov A.V., Zhmak M.N. et al. (1996) Vaccine, 14, 1375- 1380. Scholar google search Ройт А., Бростофф Дж., Мейл Д. (2000) Иммунология, Мир, М. Scholar google search Игнатов П.Е. (2002) Иммунитет и инфекция, Время, Москва. Scholar google search Ярилин А.А. (1999) Основы иммунологии, Медицина, Москва. Scholar google search Grandi G. (2001) Trends Biotechnol., 19, 181- 188. Scholar google search Mount D.W. (2001) Bioinformatics: Sequence and Genome Analysis, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York. Scholar google search Altschul S.F., Madden T.L., Schaffer A.A. et al. (1997) Nucleic Acids Res., 25, 3389- 3402. Scholar google search Bateman A., Birney E., Cerruti L. et al. (2002) Nucleic Acids Res., 30, 276- 280. Scholar google search Letunic I., Goodstadt L., Dickens N.J. et al. (2002) Nucleic Acids Res., 30, 242- 244. Scholar google search Falquet L., Pagni M., Bucher P. et al. (2002) Nucleic Acids Res., 30, 235- 238. Scholar google search Berthet F.X., Coche Т., Finals С. (2001) J. Biotechnol., 85, 213- 226. Scholar google search Nielsen H., Engelbrecht J., Brunak S., von Heijne G. (1997) Protein Eng., 10,1- 6. Scholar google search Nielsen Н., Brunak S., von Heijne G. (1999) Protein Eng., 12, 3- 9. Scholar google search Hayashi S., Wu H.C. (1990) J. Bioenerg. Biomembr., 22, 451- 471. Scholar google search Gavel Y., von Heijne G. (1990) Protein Eng., 3, 433- 442. Scholar google search Yan В., Zhang W., Ding J., Gao P.J. (1999) Protein Chem., 18, 511- 521*. Scholar google search Ley P van der, Heckels J.E., Virji M. et al. (1991) Infect. Immun., 59,2963- 2971. Scholar google search Rost B. (1996) Methods Enzymol., 266, 525- 539. Scholar google search Kyte J., Doolittle R. (1982) J. Mol. Biol., 157, 105- 132. Scholar google search Tettelin H., Sounders N.J., Heidelberg J. et al. (2000) Science, 287, 1809- 1815. Scholar google search Pizza M., Scarlato V., Masignani V. et al. |2000) Science, 287, 1816- 1820. Scholar google search DrabickJ.J., Brandt B.L., Moran E.E. et al. (1999) Vaccine, 18, 160- 172. Scholar google search Katial R.K., Brandt B.L., Moran E.E. et al. (2002) Infect. Immun., 70, 702- 707. Scholar google search Poolman J. Т., Kriz- Kuzemenska P., Ashton F. et al. (1995) Clin. Diagn. Lab. Immunol., 2, 69- 72. Scholar google search Peterson J.D., Umayam L.A., Dickinson T. et al. (2001) Nucleic Acids Res., 29. 123- 125. Scholar google search Roccasecca R., Folgori A., Ercole B.B. et al. (2001) Int. Rev. Immunol., 20, 289- 300. Scholar google search Montgomery D.L. (2000) Brief Bioinform., 1, 289- 296. Scholar google search Louise R., Skjot V., Agger E.M., Andersen P. (2001) Scand. J. Infect. Dis., 33, 643- 647. Scholar google search Pennisi E. (1998) Science, 281, 324- 325. Scholar google search Wang R., Doolan D.L., Le T.P. et al (1998) Science, 282, 476- 480. Scholar google search Hoffman S.L., Rogers W.O., Carucci D.J., Venter J.C. (1998) Nat. Med., 4, 1351- 1353. Scholar google search Stephens R.S. (2000) J. Infect. Dis., 181 (Suppl 3), S521- 523. Scholar google search Igietseme J.U., Black С.М., Caldwell H.D. (2002) BioDrugs., 16, 19- 35. Scholar google search Pellequer J.- L., Westhof E., van Regenmortel M.H.V. (1994) In: Peptide antigens. A practical approach, IRL PRESS, Oxford University Press, Oxford, New York, Tokyo, pp.7- 25. Scholar google search Норр Т.Р., Woods K.R. (1981) Proc. Natl. Acad. Sci. USA, 78, 3824- 3828. Scholar google search Nozaki Y., Tanford С. (1971) J. Biol. Chem., 246, 2211- 2227. Scholar google search Bull H.B., Breese K. (1974) Arch. Biochem. Biophys. 161, 665- 670. Scholar google search Parker J.M., Guo D., Hodges R.S. (1986) Biochemistry, 25, 5425- 5432. Scholar google search Karplus P.A., Schulz G.E. (1985) Naturwissenschaften, 72, S. 212. Scholar google search Hopp T.P. (1984) Ann. Sclavo. Collana. Monogr., 1, 47- 60. Scholar google search Lee В., Richards F.M. (1971) J. Mol. Biol., 171,479. Scholar google search Welling G. W., Weijer W.J., van der Zee R., Welling- Wester S. (1985) FEBS Lett., 188,215- 218. Scholar google search Chou P.Y., Fasman G.D. (1979) Biophys. J., 26, 367- 373. Scholar google search Odorico M., Pellequer J.- L. (2003) J. Mol. Recognit, 16, 20- 22. Scholar google search Carter J.M. (1994) Methods Mol. Biol., 36, 207- 223. Scholar google search Kolaskar A.S., Kulkarni- Kale U. (1999) Virology, 261, 31- 42. Scholar google search Rammensee H., Bachmann J., Emmerich N.P. et al. (1999) Immunogenetics, 50, 213- 219. Scholar google search Albert E.D., Bodmer W.F., Bontrop R.E. et al. (2002) Tissue Antigens, 60, 407- 464. Scholar google search Dafforn T.R., Lesk A.M. (2000) In: Protein- Protein Recognition, Oxford University Press, Oxford, pp. 163- 188. Scholar google search Schonbach C., Koh J.L., Flower D.R. et al. (2002) Nucleic Acids Res., 30, 226- 229. Scholar google search Honeyman M.C., Brusic V., Stone N.L., Harrison L.C. (1998) Nat. Biotechnol., 16,966- 969. Scholar google search Brusic V., Rudy G., Honeyman G. et al. (1998) Bioinformatics, 14, 121- 130. Scholar google search Nussbaum A.K., Kuttler C., Hadeler K.P. et al. (2001) Immunogenetics, 53, 87- 94. Scholar google search Stoltze L, Schirle М., Schwarz G. et al. (2000) Nat. Immunol., 1, 413- 418. Scholar google search Brusic V., van Endert P., Zeleznikow J. et al. (1999) In Silico Biol., 1, 109- 121. Scholar google search Blythe M.J., Doytchinova L.A., Flower D.R. (2002) Bioinformatics, 18, 434- 439. Scholar google search Jung G., Fleckenstein B., von der Mulbe F. et al. (2001) Biologicals, 29,179- 181. Scholar google search Logean A., Rognan D.J. (2002) Comput. Aided Mol. Des., 16, 229- 243. Scholar google search Rognan D., Lauemoller S.L., Holm A. et al. (1999) J. Med. Chem., 42, 4650- 4658. Scholar google search Говорун В.М., Арчаков А.И. (2002) Биохимия, 67, 1341- 1359. Scholar google search McAfee С.Р., Lim М.Y., Fung К. et al. (1998) J. Chromatogr. B. Biomed. Sci. Appl., 714, 325- 333. Scholar google search Utt M., Nilsson L., Ljungh A., Wadstrom T. (2002) J. Immunol. Methods., 259,1- 10. Scholar google search Bodmer J. (1996) Ciba Found Symp., 197, 233- 253. Scholar google search Jackson D.С., Purcell A.W., Fitzmaurice C.J. et al. (2002) Curr. Drug Targets., 3, 175- 196. Scholar google search Lairmore M.D., DiGeorge A.M., Conrad S.F. et al. (1995) J. Virol., 69, 6077- 6089. Scholar google search Panina- Bordignon P., Tan A., Termijtelen A. et al. (1989) Eur. J. Immunol., 19, 2237- 2242. Scholar google search Contreras C.E., Ploton I.N., Siliciano R.F. et al. (1998) Infect. Immun., 66, 3579- 3590. Scholar google search Caro- Aguilar L., Rodriguez A., Calvo- Calle J.M. et al. (2002) Infect. Immun., 70, 3479- 3492. Scholar google search Panigada M., Sturniolo Т., Besozzi G. et al. (2002) Infect. Immun., 70, 79- 85. Scholar google search Taneja V., David C.S. (1998) J Clin. Invest, 101, 921- 926. Scholar google search Taneja V., David C.S. (1999) Immunol. Rev., 169, 67- 79. Scholar google search Sarobe P., Pendleton C.D., Akatsuka T. et al. J. Clin. Invest., 102, 1239- 1248. Scholar google search Kato K., Ootsuyama Y., Tanaka T. et al. (1992) Virus Res., 22, 107- 123. Scholar google search Hoffman N.G., Seillier- Moiseiwitsch F., Ahn J. et al. (2002) J. Virol., 76, 3852- 3864. Scholar google search Farci P., Shimoda A., Wong D. et al. (1996) Proc. Natl. Acad Sci. USA, 93, 15394- 15399. Scholar google search Соболев Б.Н., Поротое В.В., Оленина Л.В. и др. (2002) Биофизика, 47(2), 204- 210. Scholar google search Olenina L.V., Nikolaeva L.I., Sobolev B.N. et al. (2002) J. Viral. Hepat., 9, 174- 182. Scholar google search Patarroyo G., Franco L., Amador R. et al. (1992) Vaccine, 10,175- 178. Scholar google search Tarn J.P. (1994) In: Peptide Antigens. A Practical Approach. Oxford University Press, Oxford, New York, Tokyo, pp.83- 115. Scholar google search КороевД.О., Обозная М.Б., Жмак М.Н. и соавт. (2002) Биоорган, химия, 28, 291- 297. Scholar google search Волкова Т.Д., Вольпина О.М., Жмак М.Н. и соавт. (2001) Биоорган, химия, 27, 174- 179. Scholar google search Карпенко Л.И. Игнатьев Г.М., Агафонов А.Л. и соавт. (2002) Вопросы вирусологии, 47, 25- 28. Scholar google search Бондаренко В.М., Белявская В.А. Воробьев А.А. (2002) Журнал микробиологии, эпидемиологии и иммунобиологии, № 3, 70- 79. Scholar google search Gregersen J.P. (2001) Naturwissenschaften, 88, 504- 513. Scholar google search Streatfield S.J., Lane J.R., Brooks C.A. et al. (2003) Vaccine, 30, 812- 815. Scholar google search Haq T.A., Mason H.S., Clements J.D., Arntzen C.J. (1995) Science, 268, 714- 716. Scholar google search Mason H.S., Haq T.A., Clements J.D., Arntzen C.J. (1998) Vaccine, 16, 1336- 1343. Scholar google search Tacket C.O., Mason H.S., Losonsky G. et al. (1998) Nat. Med., 4, 607- 609. Scholar google search Arakawa Т., Chong D.K., Langridge W.H. (1998) Nat. Biotechnol., 16, 292-. Scholar google search Richter L.J., Thanavala Y., Arntzen C.J., Mason H.S. (2000) Nat. Biotechnol., 18, 1167- 1171. Scholar google search Pharmaprojects 2002, PJB Publications Ltd. Scholar google search Tackaberry E.S., Dudani A.K., Prior F. et al. (1999) Vaccine, 17, 3020- 3029. Scholar google search Clough J. (2002) Drug Discov. Today, 7, 886- 887. Scholar google search Bonetta L. (2002) Nat. Med., 8, 94. Scholar google search Strober W., Kelsall В., March T.J. (1998).Clin. Immunol., 18, 1- 30. Scholar google search Gotsjnan I., Alper R., Klein A. et al. (2002) Cancer, 94, 406- 414. Scholar google search Tacket C.O., Mason H.S. (1999) Microbes Infect., 1, 777- 783. Scholar google search Kato- Maeda M., Bifani P.J., Kreiswirth B.N., Small P.M. (2001) J. Clin. Invest., 107, 533- 537. Scholar google search Lollini P.L., Forni G. (2003) Trends Immunol., 24, 62- 66. Scholar google search Davis I.D., Jefford M., Parente P., Cebon J. (2003) J. Leukoc. Biol., 73, 3- 29. Scholar google search Meng W.S., Butterfield L.H. (2002) Pharm. Res., 19, 926- 932. Scholar google search Espinoza- Delgado I. (2002) Oncologist, 7 (Suppl. 3), 20- 33. Scholar google search