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ORCIDEvgeny M. Zdobnov
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2020 – today
- 2023
[j29]Dmitry Kuznetsov, Fredrik Tegenfeldt, Mosè Manni, Mathieu Seppey
, Matthew Berkeley, Evgenia V. Kriventseva, Evgeny M. Zdobnov:
OrthoDB v11: annotation of orthologs in the widest sampling of organismal diversity. Nucleic Acids Res. 51(D1): 445-451 (2023)- 2022
- [j28]Silas Kieser, Evgeny M. Zdobnov, Mirko Trajkovski:
Comprehensive mouse microbiota genome catalog reveals major difference to its human counterpart. PLoS Comput. Biol. 18(3) (2022) - 2021
- [j27]Evgeny M. Zdobnov, Dmitry Kuznetsov, Fredrik Tegenfeldt, Mosè Manni, Matthew Berkeley, Evgenia V. Kriventseva:
OrthoDB in 2020: evolutionary and functional annotations of orthologs. Nucleic Acids Res. 49(Database-Issue): D389-D393 (2021) - 2020
- [j26]Elizaveta V. Starikova, Polina O. Tikhonova, Nikita A. Prianichnikov, Chris M. Rands, Evgeny M. Zdobnov, Elena N. Ilina, Vadim M. Govorun:
Phigaro: high-throughput prophage sequence annotation. Bioinform. 36(12): 3882-3884 (2020) - [j25]Silas Kieser, Joseph Brown, Evgeny M. Zdobnov, Mirko Trajkovski, Lee Ann McCue:
ATLAS: a Snakemake workflow for assembly, annotation, and genomic binning of metagenome sequence data. BMC Bioinform. 21(1): 257 (2020)
2010 – 2019
- 2019
- [j24]Evgenia V. Kriventseva, Dmitry Kuznetsov, Fredrik Tegenfeldt, Mosè Manni, Renata Dias, Felipe A. Simão, Evgeny M. Zdobnov:
OrthoDB v10: sampling the diversity of animal, plant, fungal, protist, bacterial and viral genomes for evolutionary and functional annotations of orthologs. Nucleic Acids Res. 47(Database-Issue): D807-D811 (2019) - 2017
- [j23]Andjela Rodic, Bojana Blagojevic, Evgeny M. Zdobnov, Magdalena Djordjevic, Marko Djordjevic:
Understanding key features of bacterial restriction-modification systems through quantitative modeling. BMC Syst. Biol. 11(S-1): 1-15 (2017) - [j22]Evgeny M. Zdobnov, Fredrik Tegenfeldt, Dmitry Kuznetsov, Robert M. Waterhouse, Felipe A. Simão, Panagiotis Ioannidis, Mathieu Seppey, Alexis Loetscher, Evgenia V. Kriventseva:
OrthoDB v9.1: cataloging evolutionary and functional annotations for animal, fungal, plant, archaeal, bacterial and viral orthologs. Nucleic Acids Res. 45(Database-Issue): D744-D749 (2017) - 2016
- [j21]Aline Dousse, Thomas Junier, Evgeny M. Zdobnov:
CEGA - a catalog of conserved elements from genomic alignments. Nucleic Acids Res. 44(Database-Issue): 96-100 (2016) - 2015
- [j20]Felipe A. Simão, Robert M. Waterhouse, Panagiotis Ioannidis, Evgenia V. Kriventseva, Evgeny M. Zdobnov:
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs. Bioinform. 31(19): 3210-3212 (2015) - [j19]Evgenia V. Kriventseva, Fredrik Tegenfeldt, Tom J. Petty, Robert M. Waterhouse, Felipe A. Simão, Igor A. Pozdnyakov, Panagiotis Ioannidis, Evgeny M. Zdobnov:
OrthoDB v8: update of the hierarchical catalog of orthologs and the underlying free software. Nucleic Acids Res. 43(Database-Issue): 250-256 (2015) - 2014
- [j18]Heinz Stockinger, Adrian M. Altenhoff, Konstantin Arnold, Amos Bairoch, Frederic B. Bastian, Sven Bergmann, Lydie Bougueleret, Philipp Bucher, Mauro Delorenzi, Lydie Lane, Philippe Le Mercier, Frédérique Lisacek, Olivier Michielin, Patricia M. Palagi, Jacques Rougemont, Torsten Schwede, Christian von Mering, Erik van Nimwegen, Daniel Walther, Ioannis Xenarios, Mihaela Zavolan, Evgeny M. Zdobnov, Vincent Zoete, Ron D. Appel:
Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support. Nucleic Acids Res. 42(Webserver-Issue): 436-441 (2014) - 2013
- [j17]Robert M. Waterhouse, Fredrik Tegenfeldt, Jia Li, Evgeny M. Zdobnov, Evgenia V. Kriventseva:
OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologs. Nucleic Acids Res. 41(Database-Issue): 358-365 (2013) - [j16]Charles E. Vejnar, Matthias Blum, Evgeny M. Zdobnov:
miRmap web: comprehensive microRNA target prediction online. Nucleic Acids Res. 41(Webserver-Issue): 165-168 (2013) - 2011
- [j15]Robert M. Waterhouse, Evgeny M. Zdobnov, Fredrik Tegenfeldt, Jia Li, Evgenia V. Kriventseva:
OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011. Nucleic Acids Res. 39(Database-Issue): 283-288 (2011) - 2010
- [j14]Thomas Junier, Evgeny M. Zdobnov:
The Newick utilities: high-throughput phylogenetic tree processing in the UNIX shell. Bioinform. 26(13): 1669-1670 (2010) - [j13]Jaebum Kim, Ryan Cunningham, Brian James, Stefan Wyder, Joshua D. Gibson, Oliver Niehuis, Evgeny M. Zdobnov, Hugh M. Robertson, Gene E. Robinson, John H. Werren, Saurabh Sinha:
Functional Characterization of Transcription Factor Motifs Using Cross-species Comparison across Large Evolutionary Distances. PLoS Comput. Biol. 6(1) (2010)
2000 – 2009
- 2009
- [j12]Daniel Gerlach, Evgenia V. Kriventseva, Nazim Rahman, Charles E. Vejnar, Evgeni M. Zdobnov:
miROrtho: computational survey of microRNA genes. Nucleic Acids Res. 37(Database-Issue): 111-117 (2009) - 2008
- [j11]Evgenia V. Kriventseva, Nazim Rahman, Octavio Espinosa, Evgeni M. Zdobnov:
OrthoDB: the hierarchical catalog of eukaryotic orthologs. Nucleic Acids Res. 36(Database-Issue): 271-275 (2008) - 2007
- [j10]Daniel Lawson, Peter Arensburger, Peter Atkinson, Nora J. Besansky, Robert V. Bruggner, Ryan Butler, Kathryn S. Campbell, George K. Christophides, Scott Christley, Emmanuel Dialynas, David B. Emmert, Martin Hammond, Catherine A. Hill, Ryan C. Kennedy, Neil F. Lobo, Robert M. MacCallum, Gregory R. Madey, Karine Megy, Seth Redmond, Susan Russo, David W. Severson, Eric O. Stinson, Pantelis Topalis, Evgeni M. Zdobnov, Ewan Birney, William M. Gelbart, Fotis C. Kafatos, Christos Louis, Frank H. Collins:
VectorBase: a home for invertebrate vectors of human pathogens. Nucleic Acids Res. 35(Database-Issue): 503-505 (2007) - 2003
- [j9]Nicola J. Mulder, Rolf Apweiler, Terri K. Attwood, Amos Bairoch, Daniel Barrell, Alex Bateman, David Binns, Margaret Biswas, Paul Bradley, Peer Bork, Philipp Bucher, Richard R. Copley, Emmanuel Courcelle, Ujjwal Das, Richard Durbin, Laurent Falquet, Wolfgang Fleischmann, Sam Griffiths-Jones, Daniel H. Haft, Nicola Harte, Nicolas Hulo, Daniel Kahn, Alexander Kanapin, Maria Krestyaninova, Rodrigo Lopez, Ivica Letunic, David Lonsdale, Ville Silventoinen, Sandra E. Orchard, Marco Pagni, David Peyruc, Chris P. Ponting, Jeremy D. Selengut, Florence Servant, Christian J. A. Sigrist, Robert Vaughan, Evgeni M. Zdobnov:
The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res. 31(1): 315-318 (2003) - 2002
- [j8]Evgeni M. Zdobnov, Rodrigo Lopez, Rolf Apweiler, Thure Etzold:
The EBI SRS server-recent developments. Bioinform. 18(2): 368-373 (2002) - [j7]Alexander Kanapin, Rolf Apweiler, Margaret Biswas, Wolfgang Fleischmann, Youla Karavidopoulou, Paul J. Kersey, Evgenia V. Kriventseva, Virginie Mittard, Nicola J. Mulder, Thomas M. Oinn, Isabelle Phan, Florence Servant, Evgeni M. Zdobnov:
Interactive InterPro-based comparisons of proteins in whole genomes. Bioinform. 18(2): 374-375 (2002) - [j6]Evgeni M. Zdobnov, Rodrigo Lopez, Rolf Apweiler, Thure Etzold:
The EBI SRS server-new features. Bioinform. 18(8): 1149-1150 (2002) - [p1]Evgeni M. Zdobnov, Rodrigo Lopez, Rolf Apweiler, Thure Etzold:
Bioinformatics: Using the Molecular Biology Data. Essentials of Genomics and Bioinformatics 2002: 265-284 - 2001
- [j5]Evgeni M. Zdobnov, Rolf Apweiler:
InterProScan - an integration platform for the signature-recognition methods in InterPro. Bioinform. 17(9): 847-848 (2001) - [j4]Evgenia V. Kriventseva, Wolfgang Fleischmann, Evgeni M. Zdobnov, Rolf Apweiler:
CluSTr: a database of clusters of SWISS-PROT+TrEMBL proteins. Nucleic Acids Res. 29(1): 33-36 (2001) - [j3]Rolf Apweiler, Terri K. Attwood, Amos Bairoch, Alex Bateman, Ewan Birney, Margaret Biswas, Philipp Bucher, Lorenzo Cerutti, Florence Corpet, Michael D. R. Croning, Richard Durbin, Laurent Falquet, Wolfgang Fleischmann, Jérôme Gouzy, Henning Hermjakob, Nicolas Hulo, Inge Jonassen, Daniel Kahn, Alexander Kanapin, Youla Karavidopoulou, Rodrigo Lopez, Beate Marx, Nicola J. Mulder, Thomas M. Oinn, Marco Pagni, Florence Servant, Christian J. A. Sigrist, Evgeni M. Zdobnov:
The InterPro database, an integrated documentation resource for protein families, domains and functional sites. Nucleic Acids Res. 29(1): 37-40 (2001) - [j2]Rolf Apweiler, Margaret Biswas, Wolfgang Fleischmann, Alexander Kanapin, Youla Karavidopoulou, Paul J. Kersey, Evgenia V. Kriventseva, Virginie Mittard, Nicola J. Mulder, Isabelle Phan, Evgeni M. Zdobnov:
Proteome Analysis Database: online application of InterPro and CluSTr for the functional classification of proteins in whole genomes. Nucleic Acids Res. 29(1): 44-48 (2001) - 2000
- [j1]Rolf Apweiler, Terri K. Attwood, Amos Bairoch, Alex Bateman, Ewan Birney, Margaret Biswas, Philipp Bucher, Lorenzo Cerutti, Florence Corpet, Michael D. R. Croning, Richard Durbin, Laurent Falquet, Wolfgang Fleischmann, Jérôme Gouzy, Henning Hermjakob, Nicolas Hulo, Inge Jonassen, Daniel Kahn, Alexander Kanapin, Youla Karavidopoulou, Rodrigo Lopez, Beate Marx, Nicola J. Mulder, Thomas M. Oinn, Marco Pagni, Florence Servant, Christian J. A. Sigrist, Evgeni M. Zdobnov:
InterPro-an integrated documentation resource for protein families, domains and functional sites. Bioinform. 16(12): 1145-1150 (2000) - [c2]Evgeni M. Zdobnov, Rodrigo Lopez, Rolf Apweiler, Thure Etzold:
The EBI SRS Server: Recent Developments. German Conference on Bioinformatics 2000: 139-148 - [c1]Margaret Biswas, Rolf Apweiler, Wolfgang Fleischmann, Alexander Kanapin, Youla Karavidopoulou, Paul J. Kersey, Evgenia V. Kriventseva, Virginie Mittard, Nicola J. Mulder, Thomas M. Oinn, Isabelle Phan, Evgeni M. Zdobnov:
Proteome Analysis: Application of InterPro and CluSTr for the Functional Classification of Proteins in Whole Genomes. German Conference on Bioinformatics 2000: 149-158
Coauthor Index
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