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Eugene V. Koonin: [Publications] [Author Rank by year] [Co-authors] [Prefers] [Cites] [Cited by]

Publications of Author

  1. Eugene V. Koonin, Roman L. Tatusov, David J. Lipman
    A natural taxonomy of gene families from complete genomes. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1997, pp:13-14 [Conf]
  2. D. Roland Walker, Eugene V. Koonin
    SEALS: A System for Easy Analysis of Lots of Sequences. [Citation Graph (0, 0)][DBLP]
    ISMB, 1997, pp:333-339 [Conf]
  3. Liran Carmel, Igor B. Rogozin, Yuri I. Wolf, Eugene V. Koonin
    An Expectation-Maximization Algorithm for Analysis of Evolution of Exon-Intron Structure of Eukaryotic Genes. [Citation Graph (0, 0)][DBLP]
    Comparative Genomics, 2005, pp:35-46 [Conf]
  4. Piotr Berman, Zheng Zhang 0004, Yuri I. Wolf, Eugene V. Koonin, Webb Miller
    Winnowing sequences from a database search. [Citation Graph (0, 0)][DBLP]
    RECOMB, 1999, pp:50-58 [Conf]
  5. Eugene V. Koonin, Roman L. Tatusov, Michael Y. Galperin, Michael N. Rosanov
    Genome analysis using clusters of orthologous groups (COGs). [Citation Graph (0, 0)][DBLP]
    RECOMB, 1998, pp:135-139 [Conf]
  6. Igor B. Rogozin, Kira S. Makarova, Yuri I. Wolf, Eugene V. Koonin
    Computational approaches for the analysis of gene neighbourhoods in prokaryotic genomes. [Citation Graph (0, 0)][DBLP]
    Briefings in Bioinformatics, 2004, v:5, n:2, pp:131-149 [Journal]
  7. Igor B. Rogozin, Alexander V. Sverdlov, Vladimir N. Babenko, Eugene V. Koonin
    Analysis of evolution of exon-intron structure of eukaryotic genes. [Citation Graph (0, 0)][DBLP]
    Briefings in Bioinformatics, 2005, v:6, n:2, pp:118-134 [Journal]
  8. Artem S. Novozhilov, Georgy P. Karev, Eugene V. Koonin
    Biological applications of the theory of birth-and-death processes. [Citation Graph (0, 0)][DBLP]
    Briefings in Bioinformatics, 2006, v:7, n:1, pp:70-85 [Journal]
  9. Mark Borodovsky, Eugene V. Koonin, Chris Burge, James W. Fickett, John Logsdon, Andrej Sali, Gary D. Stormo, Igor B. Zhulin
    The Third Georgia Tech-Emory International Conference on Bioinformatics: In Silico Biology; Bioinformatics After Human Genome (November 15-18, 2001, Atlanta, Georgia, USA). [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2001, v:17, n:10, pp:859-861 [Journal]
  10. Georgy P. Karev, Faina S. Berezovskaya, Eugene V. Koonin
    Modeling genome evolution with a diffusion approximation of a birth-and-death process. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2005, v:21, n:S3, pp:19- [Journal]
  11. Georgy P. Karev, Yuri I. Wolf, Eugene V. Koonin
    Simple stochastic birth andz death models of genome evolution: was there enough time for us to evolve? [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2003, v:19, n:15, pp:1889-1900 [Journal]
  12. Kira S. Makarova, Eugene V. Koonin, Robert Haselkorn, Michael Y. Galperin
    Cyanobacterial response regulator PatA contains a conserved N-terminal domain (PATAN) with an alpha-helical insertion. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2006, v:22, n:11, pp:1297-1301 [Journal]
  13. Igor B. Rogozin, Alexey V. Kochetov, Fyodor A. Kondrashov, Eugene V. Koonin, Luciano Milanesi
    Presence of ATG triplets in 5' untranslated regions of eukaryotic cDNAs correlates with a `weak' context of the start codon. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2001, v:17, n:10, pp:890-900 [Journal]
  14. Alejandro A. Schäffer, Yuri I. Wolf, Chris P. Ponting, Eugene V. Koonin, L. Aravind, Stephen F. Altschul
    IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 1999, v:15, n:12, pp:1000-1011 [Journal]
  15. Roman L. Tatusov, Eugene V. Koonin
    A simple tool to search for sequence motifs that are conserved in BLAST outputs. [Citation Graph (0, 0)][DBLP]
    Computer Applications in the Biosciences, 1994, v:10, n:4, pp:457-459 [Journal]
  16. Kira S. Makarova, Nick V. Grishin, Eugene V. Koonin
    The HicAB cassette, a putative novel, RNA-targeting toxin-antitoxin system in archaea and bacteria. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2006, v:22, n:21, pp:2581-2584 [Journal]
  17. Roman L. Tatusov, Natalie D. Fedorova, John D. Jackson, Aviva R. Jacobs, Boris Kiryutin, Eugene V. Koonin, Dmitri M. Krylov, Raja Mazumder, Sergei L. Mekhedov, Anastasia N. Nikolskaya, B. Sridhar Rao, Sergei Smirnov, Alexander V. Sverdlov, Sona Vasudevan, Yuri I. Wolf, Jodie J. Yin, Darren A. Natale
    The COG database: an updated version includes eukaryotes. [Citation Graph (0, 0)][DBLP]
    BMC Bioinformatics, 2003, v:4, n:, pp:41- [Journal]
  18. Michael Y. Galperin, Eugene V. Koonin
    Sources of systematic error in functional annotation of genomes: domain rearrangement, non-orthologous gene displacement, and operon disruption. [Citation Graph (0, 0)][DBLP]
    In Silico Biology, 1998, v:1, n:, pp:7- [Journal]
  19. Piotr Berman, Zheng Zhang 0004, Yuri I. Wolf, Eugene V. Koonin, Webb Miller
    Winnowing Sequences from a Database Search. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2000, v:7, n:1-2, pp:293-302 [Journal]
  20. Tatyana V. Ilyina, Eugene V. Koonin
    Conserved sequence motifs in the initiator proteins for rolling circle DNA replication encoded by diverse replicons from eubacteria, eucaryotes and archaebacteria. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 1992, v:20, n:13, pp:3279-3285 [Journal]
  21. Eugene V. Koonin
    Prediction of an rRNA methyltransferase domain in human tumor-specific nucleolar protein P120. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 1994, v:22, n:13, pp:2476-2478 [Journal]
  22. Roman L. Tatusov, Michael Y. Galperin, Darren A. Natale, Eugene V. Koonin
    The COG database: a tool for genome-scale analysis of protein functions and evolution. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2000, v:28, n:1, pp:33-36 [Journal]
  23. Roman L. Tatusov, Darren A. Natale, Igor V. Garkavtsev, Tatiana A. Tatusova, Uma T. Shankavaram, Bachoti S. Rao, Boris Kiryutin, Michael Y. Galperin, Natalie D. Fedorova, Eugene V. Koonin
    The COG database: new developments in phylogenetic classification of proteins from complete genomes. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2001, v:29, n:1, pp:22-28 [Journal]
  24. Jie Zheng, Igor B. Rogozin, Eugene V. Koonin, Teresa M. Przytycka
    A Rigorous Analysis of the Pattern of Intron Conservation Supports the Coelomata Clade of Animals. [Citation Graph (0, 0)][DBLP]
    RECOMB-CG, 2007, pp:177-191 [Conf]

  25. A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches. [Citation Graph (, )][DBLP]


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