David M. Kristensen

Publication Activity (10 Years)

Years Active: 2005-2019
Publications (10 Years): 3

Top Topics

Protein Families

Computer Viruses

Comparative Genomics

Top Venues

Nucleic Acids Res.

Briefings Bioinform.

Publications

Michael Y. Galperin, David M. Kristensen, Kira S. Makarova, Yuri I. Wolf, Eugene V. Koonin
Microbial genome analysis: the COG approach. Briefings Bioinform. 20 (4) (2019)
Ana Laura Grazziotin, Eugene V. Koonin, David M. Kristensen
Prokaryotic Virus Orthologous Groups (pVOGs): a resource for comparative genomics and protein family annotation. Nucleic Acids Res. 45 (Database-Issue) (2017)
David M. Kristensen, Yuri I. Wolf, Eugene V. Koonin
ATGC database and ATGC-COGs: an updated resource for micro- and macro-evolutionary studies of prokaryotic genomes and protein family annotation. Nucleic Acids Res. 45 (Database-Issue) (2017)
David M. Kristensen, Usman Saeed, Dmitrij Frishman, Eugene V. Koonin
A census of α-helical membrane proteins in double-stranded DNA viruses infecting bacteria and archaea. BMC Bioinform. 16 (2015)
David M. Kristensen, Yuri I. Wolf, Arcady R. Mushegian, Eugene V. Koonin
Computational methods for Gene Orthology inference. Briefings Bioinform. 12 (5) (2011)
David M. Kristensen, Lavanya Kannan, Michael K. Coleman, Yuri I. Wolf, Alexander Sorokin, Eugene V. Koonin, Arcady R. Mushegian
A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches. Bioinform. 26 (12) (2010)
R. Matthew Ward, Eric Venner, Bryce Daines, Stephen Murray, Serkan Erdin, David M. Kristensen, Olivier Lichtarge
Evolutionary Trace Annotation Server: automated enzyme function prediction in protein structures using 3D templates. Bioinform. 25 (11) (2009)
David M. Kristensen, R. Matthew Ward, Andreas Martin Lisewski, Serkan Erdin, Brian Y. Chen, Viacheslav Fofanov, Marek Kimmel, Lydia E. Kavraki, Olivier Lichtarge
Prediction of enzyme function based on 3D templates of evolutionarily important amino acids. BMC Bioinform. 9 (2008)
Brian Y. Chen, Drew H. Bryant, Viacheslav Fofanov, David M. Kristensen, Amanda E. Cruess, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
Cavity Scaling: Automated Refinement of Cavity-Aware motifs in protein Function Prediction. J. Bioinform. Comput. Biol. 5 (2a) (2007)
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
The MASH Pipeline for Protein Function Prediction and an Algorithm for the Geometric Refinement of 3D Motifs. J. Comput. Biol. 14 (6) (2007)
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
Geometric Sieving: Automated Distributed Optimization of 3D Motifs for Protein Function Prediction. RECOMB (2006)
Daniel H. Morgan, David M. Kristensen, David Mittelman, Olivier Lichtarge
ET viewer: an application for predicting and visualizing functional sites in protein structures. Bioinform. 22 (16) (2006)
Brian Y. Chen, Viacheslav Fofanov, David M. Kristensen, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
Algorithms for Structural Comparison and Statistical Analysis of 3D Protein Motifs. Pacific Symposium on Biocomputing (2005)