| Prokaryotic Virus Orthologous Groups (pVOGs): a resource for comparative genomics and protein family annotation AL Grazziotin, EV Koonin, DM Kristensen Nucleic acids research, gkw975, 2016 | 360 | 2016 |
| New dimensions of the virus world discovered through metagenomics DM Kristensen, AR Mushegian, VV Dolja, EV Koonin Trends in microbiology 18 (1), 11-19, 2010 | 341 | 2010 |
| Computational methods for Gene Orthology inference DM Kristensen, YI Wolf, AR Mushegian, EV Koonin Briefings in bioinformatics 12 (5), 379-391, 2011 | 277 | 2011 |
| Structural clusters of evolutionary trace residues are statistically significant and common in proteins S Madabushi, H Yao, M Marsh, DM Kristensen, A Philippi, ME Sowa, ... Journal of molecular biology 316 (1), 139-154, 2002 | 261 | 2002 |
| An accurate, sensitive, and scalable method to identify functional sites in protein structures H Yao, DM Kristensen, I Mihalek, ME Sowa, C Shaw, M Kimmel, L Kavraki, ... Journal of molecular biology 326 (1), 255-261, 2003 | 246 | 2003 |
| Microbial genome analysis: the COG approach MY Galperin, DM Kristensen, KS Makarova, YI Wolf, EV Koonin Briefings in bioinformatics 20 (4), 1063-1070, 2019 | 234 | 2019 |
| A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches DM Kristensen, L Kannan, MK Coleman, YI Wolf, A Sorokin, EV Koonin, ... Bioinformatics 26 (12), 1481-1487, 2010 | 234 | 2010 |
| Genomes in turmoil: quantification of genome dynamics in prokaryote supergenomes P Puigbò, AE Lobkovsky, DM Kristensen, YI Wolf, EV Koonin BMC biology 12, 1-19, 2014 | 208 | 2014 |
| Classification and quantification of bacteriophage taxa in human gut metagenomes AS Waller, T Yamada, DM Kristensen, JR Kultima, S Sunagawa, ... The ISME journal 8 (7), 1391-1402, 2014 | 159 | 2014 |
| Orthologous gene clusters and taxon signature genes for viruses of prokaryotes DM Kristensen, AS Waller, T Yamada, P Bork, AR Mushegian, EV Koonin Journal of bacteriology 195 (5), 941-950, 2013 | 144 | 2013 |
| Ligand-free and-bound structures of the binding protein (LivJ) of the Escherichia coli ABC leucine/isoleucine/valine transport system: trajectory and dynamics of the … S Trakhanov, NK Vyas, H Luecke, DM Kristensen, J Ma, FA Quiocho Biochemistry 44 (17), 6597-6608, 2005 | 131 | 2005 |
| No evidence of inhibition of horizontal gene transfer by CRISPR–Cas on evolutionary timescales U Gophna, DM Kristensen, YI Wolf, O Popa, C Drevet, EV Koonin The ISME journal 9 (9), 2021-2027, 2015 | 127 | 2015 |
| Prediction of enzyme function based on 3D templates of evolutionarily important amino acids DM Kristensen, RM Ward, AM Lisewski, S Erdin, BY Chen, VY Fofanov, ... BMC bioinformatics 9, 1-19, 2008 | 91 | 2008 |
| ET viewer: an application for predicting and visualizing functional sites in protein structures DH Morgan, DM Kristensen, D Mittelman, O Lichtarge Bioinformatics 22 (16), 2049-2050, 2006 | 82 | 2006 |
| Contribution of phage‐derived genomic islands to the virulence of facultative bacterial pathogens B Busby, DM Kristensen, EV Koonin Environmental microbiology 15 (2), 307-312, 2013 | 74 | 2013 |
| Accurate and scalable identification of functional sites by evolutionary tracing O Lichtarge, H Yao, DM Kristensen, S Madabushi, I Mihalek Journal of Structural and Functional Genomics 4, 159-166, 2003 | 54 | 2003 |
| Evolutionarily conserved orthologous families in phages are relatively rare in their prokaryotic hosts DM Kristensen, X Cai, A Mushegian Journal of Bacteriology 193 (8), 1806-1814, 2011 | 53 | 2011 |
| Reconstruction of the evolution of microbial defense systems P Puigbò, KS Makarova, DM Kristensen, YI Wolf, EV Koonin BMC evolutionary biology 17, 1-13, 2017 | 51 | 2017 |
| The MASH pipeline for protein function prediction and an algorithm for the geometric refinement of 3D motifs BY Chen, VY Fofanov, DH Bryant, BD Dodson, DM Kristensen, ... Journal of Computational Biology 14 (6), 791-816, 2007 | 50 | 2007 |
| ALGORITHMS FOR STRUCTURAL COMPARISON AND STATISTICAL ANALYSIS OF 3D PROTEIN MOTIFS BYCVY FOFANOV, DM KRISTENSEN Pacific Symposium on Biocomputing, 334, 2005 | 47* | 2005 |
