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Jordan, I. K., Kondrashov, F. A., Adzhubei, I. A., Wolf, Y. I., Koonin, E. V., Kondrashov, A. S., & Sunyaev, S. 2005. A universal trend of amino acid gain and loss in protein evolution. Nature, 433 , 633-638. [Correction: 435, 528]
Ogurtsov, A. Y., Sunyaev, S., & Kondrashov, A. S. 2004. Indel-based evolutionary distance and mouse-human divergence. Genome Research, 14 , 1610-1616.
Kondrashov, A. S., & Rogozin, I. B. 2004. Context of deletions and insertions in human coding sequences. Human Mutation, 23, 177-185.
Bazykin, G. A., Kondrashov, F. A., Ogurtsov, A. Y., Sunyaev, S., & Kondrashov, A. S. 2004. Positive selection at sites of multiple amino acid replacements since rat-mouse divergence. Nature, 429, 558-562.
Kondrashov, F. A., Ogurtsov, A. Y., & Kondrashov, A. S. 2004. Bioinformatical assay of human gene morbidity. Nucleic Acids Research,32, 1731-1737.
McCune, A. R., Houle, D., McMillan, K., Annable, R., & Kondrashov, A. S. 2004. Two classes of deleterious recessive alleles in a natural population of zebrafish, Danio rerio. Proceedings of the Royal Society of London, Series B- Biological Sciences, 271, 2025-2033.
Kondrashov, A. S. 2003. Accumulation of Dobzhansky-Muller incompatabilities within a spatially structured population. Evolution, 57, 151-153.
Yang, H. P., & Kondrashov, A. S. 2003. Cyclical dynamics under constant selection against in haploid and diploid populations with facultative mutations selfing. Genetical Research, 81, 1-6.
Silva, J. C., Shabalina, S. A., Harris, D. G., Spouge, J. L., & Kondrashov, A. S. 2003. 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, 82, 1-18.
Shabalina, S. A., Ogurtsov, A. Y., Lipman, D. J., & Kondrashov, A. S. 2003. Patterns in interspecies similarity correlate with nucleotide composition in mammalian 3' UTRs. Nucleic Acids Research, 31, 5433-5439.
Roytberg, M. A., Ogurtsov, A. Y., Shabalina, S. A., & Kondrashov, A. S. 2002. A hierarchical approach to aligning collinear regions of genomes. Bioinformatics, 18, 1673-1680.
Ogurtsov, A. Y., Roytberg, M. A., Shabalina, S. A., & Kondrashov, A. S. 2002. OWEN: Aligning long collinear regions of genomes. Bioinformatics, 18 , 1703-1704.
Kondrashov, A. S., & Shabalina, S. A. 2002. Classification of common conserved sequences in mammalian intergenic regions. Human Molecular Genetics, 11 , 669-674.
Webb, C. T., Shabalina, S. A., Ogurtsov, A. Y., & Kondrashov, A. S. 2002. Analysis of similarity within 142 pairs of orthologous intergenic regions of Caenorhabditis elegans and Caenorhabditis briggsae. Nucleic Acids Research, 30 , 1233-1239
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