КОНДРАШОВ АЛЕКСЕЙ СИМОНОВИЧ

Публикации

    1. Assis R. and Kondrashov A. S.  A strong deletion bias in nonallelic gene conversion//PLoS Genetics, vol. 8, no. 2, 2012. [ DOI | http ]

    2. Naumenko S. A., Kondrashov A. S., and Bazykin  G. A. Fitness conferred by replaced amino acids declines with time//Biology Letters, vol. 8, no. 5, pp. 825–828, 2012. [ DOI | http ]

    3. Seplyarskiy V. , Kharchenko P. , Kondrashov A., and Bazykin  G. Heterogeneity of the transition/transversion ratio in drosophila and hominidae genomes// Molecular Biology and Evolution, 2012. [ DOI | http ]

    4. Leushkin E. , Bazykin G. , and Kondrashov A. Insertions and deletions trigger adaptive walks in drosophila proteins//Proceedings of the Royal Society B: Biological Sciences, vol. 279, no. 1740, pp. 3075–3082, 2012. [ DOI | http ]

    5. Bazykin G. A. and Kondrashov A. S. Major role of positive selection in the evolution of conservative segments of drosophila proteins//Proceedings of the Royal Society B: Biological Sciences, vol. 279, no. 1742, pp. 3409–3417, 2012. [ DOI | http ]

    6. Assis R. and Kondrashov A. S. Nonallelic gene conversion is not gc-biased in drosophila or primates// Molecular Biology and Evolution, vol. 29, no. 5, pp. 1291–1295, 2012. [ DOI | http ]http://istina.imec.msu.ru/workers/1463482/style/ieeetr/

    7. Shnol E.E., Ermakova E.A., Kondrashov A.S. On the relationship between the load and the variance of relative fitness //Biology Direct. 2011. Т. 6. С. 20.  

    8. Meer M.V., Kondrashov F.A., Kondrashov A.S., Artzy-Randrup Y. Compensatory evolution in mitochondrial trnas navigates valleys of low fitness //Nature. 2010. Т. 464. № 7286. С. 279-282.  

    9. Kondrashov A.S., Assis R. Bridges: a tool for identifying local similarities in long sequences// Bioinformatics. 2010. Т. 26. № 16. С. 2055-2056.  

    10. Adzhubei I.A., Sunyaev S.R., Schmidt S., Peshkin L., Ramensky V.E., Gerasimova A., Kondrashov A.S., Bork P. A method and server for predicting damaging missense mutations //Nature Methods. 2010. Т. 7. № 4. С. 248-249.  

    11. Kondrashov F.A., Kondrashov A.S. Measurements of spontaneous rates of mutations in the recent past and the near future //Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences. 2010. Т. 365. № 1544. С. 1169-1176.  

    12. Kondrashov A.S., Povolotskaya I.S., Ivankov D.N., Kondrashov F.A. Rate of sequence divergence under constant selection //Biology Direct. 2010. Т. 5. С. 5.  

    13. Donmez N., Brudno M., Bazykin G.A., Kondrashov A.S. Polymorphism due to multiple amino acid substitutions at a codon site within ciona savignyi //Genetics. 2009. Т. 181. № 2. С. 685-690.  

    14. Assis R., Kondrashov A.S. Rapid repetitive element-mediated expansion of pirna clusters in mammalian evolution //Proceedings of the National Academy of Sciences of the United States of America. 2009. Т. 106. № 17. С. 7079-7082.  

    15. Kondrashov A.S. Another step toward quantifying spontaneous mutation// Proceedings of the National Academy of Sciences of the United States of America. 2008. Т. 105. С. 9133.

    16. Schmidt S., Adzuhbei I.A., Sunyaev S., Gerasimova A., Kondrashov A.S., Kondrashov F.A. Hypermutable non-synonymous sites are under stronger negative selection// PLoS Genetics. 2008. Т. 4. № 11.  

    17. Minovitsky S., Dubchak I., Stegmaier P., Kel A., Kondrashov A.S. Short sequence motifs, overrepresented in mammalian conserved non-coding sequences //BMC Genomics. 2007. Т. 8.  

    18. Bazykin G.A., Kondrashov F.A., Brudno M., Poliakov A., Dubchak I., Kondrashov A.S. Extensive parallelism in protein evolution //Biology Direct. 2007. Т. 2.  7

    19. Kondrashov F.A., Kondrashov A.S. Role of selection in fixation of gene duplications//Journal of Theoretical Biology. 2006. Т. 239. С. 141.

    20. Kondrashov F.A., Ogurtsov A.Y., Kondrashov A.S. Selection in favor of nucleotides g and c diversifies evolution rates and levels of polymorphism at mammalian synonymous sites //Journal of Theoretical Biology. 2006. Т. 240. № 4. С. 616-626.  

    21. Jordan I.K., Wolf Y.I., Koonin E.V., Kondrashov A.S., Kondrashov F.A., Adzhubei I.A., Sunyaev S. //Nature. 2006. Т. 442. № 7105.  

    22. Artzy-Randrup Y., Kondrashov A.S. Sympatric speciation under incompatibility selection //Proceedings of the National Academy of Sciences of the United States of America. 2006. Т. 103. № 31. С. 11619-11624.  

    23. Bazykin G.A., Dushoff J., Levin S.A., Kondrashov A.S. Bursts of nonsynonymous substitutions in hiv-1 evolution reveal instances of positive selection at conservative protein sites //Proceedings of the National Academy of Sciences of the United States of America. 2006. Т. 103. С. 19396.

    24. Ogurtsov A.Y., Shabalina S.A., Kondrashov A.S., Roytberg M.A. Analysis of internal loops within the rna secondary structure in almost quadratic time//Bioinformatics. 2006. Т. 22. № 11. С. 1317.  

    25. Bazykin G.A., Kondrashov A.S. //BMC Evolutionary Biology. 2006. Т. 6.  

    26. Bernat J.A., Ginsburg D., Crawford G.E., Collins F.S., Ogurtsov A.Y., Kondrashov A.S. Distant conserved sequences flanking endothelial-specific promoters contain tissue-specific dnase-hypersensitive sites and over-represented motifs //Human Molecular Genetics. 2006. Т. 15. № 13. С. 2098.  

    27. Yampolsky L.Y., Allen C., Shabalina S.A., Kondrashov A.S. Persistence time of loss-of-function mutations at nonessential loci affecting eye color in drosophila melanogaster// Genetics. 2005. Т. 171. № 4. С. 2133-2138.  

    28. Jordan I.K., Wolf Y.I., Koonin E.V., Kondrashov A.S., Kondrashov F.A., Adzhubei I.A., Sunyaev S. A universal trend of amino acid gain and loss in protein evolution //Nature. 2005. Т. 433. № 7026. С. 633-638.   

    29. Yampolsky L.Y., Kondrashov F.A., Kondrashov A.S. Distribution of the strength of selection against amino acid replacements in human proteins//Human Molecular Genetics. 2005. Т. 14. № 21. С. 3191.  

    30. Arnegard M.E., Kondrashov A.S. Sympatric speciation by sexual selection alone is unlikely// Evolution. 2004. Т. 58. № 2. С. 222-237.  

    31. Bazykin G.A., Kondrashov F.A., Ogurtsov A.Y., Sunyaev S., Kondrashov A.S. Positive selection at sites of multiple amino acid replacements since rat-mouse divergence//Nature. 2004. Т. 429. С. 558.

    32. Ogurtsov A.Y., Kondrashov A.S., Sunyaev S. Indel-based evolutionary distance and mouse-human divergence //Genome Research. 2004. Т. 14. № 8. С. 1610-1616.  

    33. Kondrashov A.S., Rogozin I.B. Context of deletions and insertions in human coding sequences //Human Mutation. 2004. Т. 23. № 2. С. 177-185.  

    34. Kondrashov F.A., Ogurtsov A.Y., Kondrashov A.S. Bioinformatical assay of human gene morbidity//Nucleic Acids Research. 2004. Т. 32. № 5. С. 1731.  

    35. McCune A.R., McMillan K., Annable R., Houle D., Kondrashov A.S. Two classes of deleterious recessive alleles in a natural population of zebrafish, danio rerio// Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences. 2004. Т. 271. № 1552. С. 2025-2033.  

    36. Silva J.C., Shabalina S.A., Harris D.G., Spouge J.L., Kondrashov A.S. Conserved fragments of transposable elements in intergenic regions: evidence for widespread recruitment of mir- and l2-derived sequences within the mouse and human genomes//Genetical Research. 2003. Т. 82. № 1. С. 1-18.  

    37. Kondrashov A.S. Direct estimates of human per nucleotide mutation rates at 20 loci causing mendelian diseases //Human Mutation. 2003. Т. 21. № 1. С. 12-27.  

    38. Shabalina S.A., Ogurtsov A.Y., Lipman D.J., Kondrashov A.S. Patterns in interspecies similarity correlate with nucleotide composition in mammalian 3utrs// Nucleic Acids Research. 2003. Т. 31. № 18. С. 5433.  

    39. Shabalina S.A., Ogurtsov A.Y., Lipman D.J., Kondrashov A.S. Patterns in interspecies similarity correlate with nucleotide composition in mammalian 3′utrs //Nucleic Acids Research. 2003. Т. 31. № 18. С. 5433-5439.  

    40. Silva J.C., Kondrashov A.S. 34 patterns in spontaneous mutation revealed by human-baboon sequence comparison //Trends in Genetics. 2002. Т. 18. № 11. С. 544-547.  

    41. McCune A.R., Fuller R.C., Aquilina A.A., Dawley R.M., Fadool J.M., Houle D., Travis J., Kondrashov A.S. A low genomic number of recessive lethals in natural populations of bluefin killifish and zebrafish //Science. 2002. Т. 296. С. 2398.

    42. Kondrashov A.S., Kondrashov F.A., Sunyaev S. Dobzhansky-muller incompatibilities in protein evolution //Proceedings of the National Academy of Sciences of the United States of America. 2002. Т. 99. № 23. С. 14878-14883.  

    43. Roytberg M.A., Ogurtsov A.Y., Shabalina S.A., Kondrashov A.S. A hierarchical approach to aligning collinear regions of genomes //Bioinformatics. 2002. Т. 18. № 12. С. 1673.  

    44. Roytberg M.A., Ogurtsov A.Yu., Shabalina S.A., Kondrashov A.S. A hierarchical approach to aligning collinear regions of genomes //Bioinformatics. 2002. № 18. С. 16731680.

    45. Ogurtsov A.Y., Shabalina S.A., Kondrashov A.S., Roytberg M.A. Owen: aligning long collinear regions of genomes //Bioinformatics. 2002. Т. 18. № 12. С. 1703.  

    46. Kondrashov A.S., Shabalina S.A. Classification of common conserved sequences in mammalian intergenic regions //Human Molecular Genetics. 2002. Т. 11. № 6. С. 669.  

    47. Webb C.T., Shabalina S.A., Ogurtsov A.Yu., Kondrashov A.S. Analysis of similarity within 142 pairs of orthologous intergenic regions of caenorhabditis elegans and caenorhabditis briggsae //Nucleic Acids Research. 2002. Т. 30. № 5. С. 1233.  

    48. Houle D., Kondrashov A.S. Coevolution of costly mate choice and condition-dependent display of good genes//Proceedings of the Royal Society of London. Series B: Biological sciences. 2002. Т. 269. С. 9

    49. Shabalina S.A., Ogurtsov A.Y., Kondrashov A.S., Kondrashov V.A. Selective constraint in intergenic regions of human and mouse genomes //Trends in Genetics. 2001. Т. 17. № 7. С. 373-376.  

    50. Kondrashov A.S. Sex and U// Trends in Genetics. 2001. Т. 17. № 2. С. 75-77.  

    51. Yang H.-P., Tanikawa A.Y., Van Voorhies W.A., Silva J.C., Kondrashov A.S. Whole-genome effects of ethyl methanesulfonate-induced mutation on nine quantitative traits in outbred drosophila melanogaster //Genetics. 2001. Т. 157. № 3. С. 1257-1265.  

    52. Yang H.-P., Tanikawa A.Y., Kondrashov A.S. Molecular nature of 11 spontaneous de novo mutations in drosophila melanogaster //Genetics. 2001. Т. 157. № 3. С. 1285-1292.  

    53. Kondrashov F.A., Kondrashov A.S. Multidimensional epistasis and the disadvantage of sex //Proceedings of the National Academy of Sciences of the United States of America. 2001. Т. 98. С. 12089.

    54. Wolf Y.I., Rogozin I.B., Kondrashov A.S., Koonin E.V. Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context //Genome Research. 2001. Т. 11. № 3. С. 356-372.  

    55. Sunyaev S., Lathe III W., Bork P., Ramensky V., Koch I., Kondrashov A.S. Prediction of deleterious human alleles// Human Molecular Genetics. 2001. Т. 10. № 6. С. 591.  

    56. Wolf Y.I., Kondrashov A.S., Koonin E.V. Interkingdom gene fusions //Genome Biology. 2000. Т. 1. № 6.  4

    57. Koonin E.V., Wolf Y.I., Kondrashov A.S., Aravind L. Bacterial homologs of the small subunit of eukaryotic dna primase //Journal of Molecular Microbiology and Biotechnology. 2000. Т. 2. С. 509.

    58. Shabalina S.A., Kondrashov A.S. Pattern of selective constraint in c. Elegans and c. Briggsae genomes//Genetical Research. 1999. Т. 74. № 1. С. 23-30.  

    59. Shpak M., Kondrashov A.S. Applicability of the hypergeometric phenotypic model to haploid and diploid populations //Evolution. 1999. Т. 53. С. 600.

    60. Kondrashov A.S., Kondrashov F.A. Interactions among quantitative traits in the course of sympatric speciation //Nature. 1999. Т. 400. № 6742. С. 351-354.  

    61. Kondrashov A.S. Comparative genomics and evolutionary biology //Current Opinion in Genetics & Development. 1999. Т. 9. № 6. С. 624-629.  

    62. Yampolsky L.Yu., Webb C.T., Shabalina S.A., Kondrashov A.S. Rapid accumulation of a vertically transmitted parasite triggered by relaxation of natural selection among hosts //Evolutionary Ecology Research. 1999. Т. 1. № 5. С. 581-589.  

    63. Kondrashov A.S. Measuring spontaneous deleterious mutation process //Genetica. 1998. Т. 102-103. С. 183-197.  

    64. Kondrashov A.S., Shpak M. On the origin of species by means of assortative mating //Proceedings of the Royal Society of London. Series B: Biological sciences. 1998. Т. 265. С.

    65. Houle D., Kondrashov A.S., Yampolsky L.Y., Caldwell S., Steponkus P.L. The effect of cryopreservation on the lethal mutation rate in drosophila melanogaster //Genetical Research. 1997. Т. 69. № 3. С. 209-213.  

    66. Shabalina S.A., Yampolsky L.Yu., Kondrashov A.S. Rapid decline of fitness in panmictic populations of drosophila melanogaster maintained under relaxed natural selection //Proceedings of the National Academy of Sciences of the United States of America. 1997. Т. 94. № 24. С. 13034-13039.  

    67. Kondrashov A.S. Evolutionary genetics of life cycles//Annual Review of Ecology and Systematics. 1997. Т. 28. С. 391.

    68. Kondrashov A.S., Yampolsky L.Y. High genetic variability under the balance between symmetric mutation and fluctuating stabilizing selection//Genetical Research. 1996. Т. 68. С. 157.

    69. Kondrashov A.S., Yampolsky L.Y. Evolution of amphimixis and recombination under fluctuating selection in one and many traits //Genetical Research. 1996. Т. 68. С. 167.

    70. Kondrashov A.S. Contamination of the genome by very slightly deleterious mutations: why have we not died 100 times over?//Journal of Theoretical Biology. 1995. Т. 175. С. 583.

    71. Kondrashov A.S. Modifiers of mutation-selection balance: general approach and the evolution of mutation rates //Genetical Research. 1995. Т. 66. № 1. С. 53.

    72. Nazipova N.N., Shabalina S.A., Ogurtsov A.Yu., Kondrashov A.S., Roytberg M.A., Buryakov G.V., Vernoslov S.E. Samson: a software package for the biopolymer primary structure analysis//Bioinformatics. 1995. Т. 11. № 4. С. 423.  

    73. Nazipova N.N., Shabalina S.A., Ogurtsov A., Yu, Kondrashov A.S., Roytberg M.A., Buryakov G.V., Vernoslov S.E. Samson: a software package for the biopolymer primary structure analysis //Computer Applications in the Biosciences. 1995. Т. 11. С. 423.

    74. Shnol E.E., Kondrashov A.S. On some relations between different characteristics of selection//Journal of Mathematical Biology. 1994. Т. 32. С. 835.

    75. Kondrashov A.S. Muller's ratchet under epistatic selection//Genetics. 1994. Т. 136. С. 1469.

    76. Kondrashov A.S. The asexual ploidy cycle and the origin of sex//Nature. 1994. Т. 370. С. 213.

    77. Kondrashov A.S., Houle D. Genotype-environment interactions and the estimation of the genomic mutation rate in drosophila melanogaster //Proceedings of the Royal Society of London. Series B: Biological sciences. 1994. Т. 258. С. 221.

    78. Shnol E.E., Kondrashov A.S. The effect of selection on the phenotypic variance //Genetics. 1993. Т. 134. С. 995.

    79. Kondrashov A.S., Crow J.F. A molecular approach to estimating the human deleterious mutation rate //Human Mutation. 1993. Т. 2. С. 229.

    80. Kondrashov A.S., Turelli M. Deleterious mutations, apparent stabilizing selection and the maintenance of quantitative variation //Genetics. 1992. Т. 132. С. 603.

    81. Shabalina S.A., Yurieva O.V., Kondrashov A.S. On the frequencies of nucleotides and nucleotide substitions in conservative regulatory dna sequences //Journal of Theoretical Biology. 1991. Т. 149. С. 43.

    82. Vernoslov S.E., Kondrashov A.S., Roytberg M.A., Shabalina S.A., Yur'eva O.V., Nazipova N.N. Software package samson for primary structure analysis of biopolymers //Молекулярная биология. 1990. Т. 24. С. 524.

    83. Kondrashov A.S. Deleterious mutations and the evolution of sexual reproduction //Nature. 1988. Т. 336. № 6198. С. 435.

    84. Kondrashov A.S., Mina M.V. Sympatric speciation: when is it possible?//Biological Journal of the Linnean Society. 1986. Т. 27. № 3. С. 201-223.

    85. Kondrashov A.S. Multilocus model of sympatric speciation. Iii. Computer simulations //Theoretical Population Biology. 1986. Т. 29. С. 1.

    86. Alekseyev S.S., Mina M.V., Kondrashov A.S. //Зоологический журнал. 1986. Т. 65. № 2. С. 227.

    87. Kondrashov A.S. On the intensity of selection for reproductive isolation at the beginning of sympatric speciation//Генетика. 1984. Т. 20. С. 408.

    88. Kondrashov A.S. Multilocus model for sympatric speciation. Ii. Two characters //Theoretical Population Biology. 1983. Т. 24. С. 136.

 



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