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Victor Kunin

Research Profile

Occupations

Genes & Molecular Sequences

Concepts & Ideas

Phenomena

Evolution, Molecular

Chemicals & Drugs

Proteins

Procedures

Activities & Behaviors

Living Beings

Bacteria

Physiology

Horizontal Gene Transfer

Co-author Network

Publications

TOP 3
Derek S Lundberg; Stephanie Malfatti; Sur Herrera Paredes; Julien Tremblay; Susannah Green Tringe; Scott Yourstone; Tijana Glavina del Rio; Robert C Edgar; Thilo Eickhorst; Anna Engelbrektson; Jase Gehring; Philip Hugenholtz; Victor Kunin; Sarah L Lebeis; Ruth E Ley; Jeffery L Dangl
Defining the core Arabidopsis thaliana root microbiome.
Anna Engelbrektson; Victor Kunin; Kelly C Wrighton; Natasha Zvenigorodsky; Feng Chen; Howard Ochman; Philip Hugenholtz
Experimental factors affecting PCR-based estimates of microbial species richness and evenness.
Victor Kunin; Anna Engelbrektson; Howard Ochman; Philip Hugenholtz
Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates.

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All Publications

2012: Derek S Lundberg; Stephanie Malfatti; Sur Herrera Paredes; Julien Tremblay; Susannah Green Tringe; Scott Yourstone; Tijana Glavina del Rio; Robert C Edgar; Thilo Eickhorst; Anna Engelbrektson; Jase Gehring; Philip Hugenholtz; Victor Kunin; Sarah L Lebeis; Ruth E Ley; Jeffery L Dangl
Defining the core Arabidopsis thaliana root microbiome.
Nature 2012;488(7409):86-90.
2010: Anna Engelbrektson; Victor Kunin; Kelly C Wrighton; Natasha Zvenigorodsky; Feng Chen; Howard Ochman; Philip Hugenholtz
Experimental factors affecting PCR-based estimates of microbial species richness and evenness.
The ISME journal 2010;4(5):642-7.
2010: Victor Kunin; Anna Engelbrektson; Howard Ochman; Philip Hugenholtz
Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates.
Environmental microbiology 2010;12(1):118-23.
2009: D P R Herlemann; O Geissinger; W Ikeda-Ohtsubo; Victor Kunin; H Sun; A Lapidus; P Hugenholtz; Andreas Brune
Genomic analysis of "Elusimicrobium minutum," the first cultivated representative of the phylum "Elusimicrobia" (formerly termite group 1).
Applied and environmental microbiology 2009;75(9):2841-9.
2009: Konstantinos Mavromatis; Natalia Ivanova; Iain Anderson; Athanasios Lykidis; Sean D Hooper; Hui Sun; Victor Kunin; Alla Lapidus; Philip Hugenholtz; Bharat Patel; Nikos Kyrpides
Genome analysis of the anaerobic thermohalophilic bacterium Halothermothrix orenii.
PloS one 2009;4(1):e4192.
2008: Victor Kunin; Alex Copeland; Alla Lapidus; Konstantinos Mavromatis; Philip Hugenholtz
A bioinformatician's guide to metagenomics.
Microbiology and molecular biology reviews : MMBR 2008;72(4):557-78, Table of Contents.
2008: James G Elkins; Mircea Podar; David E Graham; Kira S Makarova; Yuri Wolf; Lennart Randau; Brian P Hedlund; Céline Brochier-Armanet; Victor Kunin; Iain Anderson; Alla Lapidus; Eugene Goltsman; Kerrie Barry; Eugene V Koonin; Phil Hugenholtz; Nikos Kyrpides; Gerhard Wanner; Paul Richardson; Martin Keller; Karl O Stetter
A korarchaeal genome reveals insights into the evolution of the Archaea.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(23):8102-7.
2008: Rotem Sorek; Victor Kunin; Philip Hugenholtz
CRISPR--a widespread system that provides acquired resistance against phages in bacteria and archaea.
Nature reviews. Microbiology 2008;6(3):181-6.
2008: Victor Kunin; Shaomei He; Falk Warnecke; S Brook Peterson; Hector Garcia Martin; Matthew Haynes; Natalia Ivanova; Linda L Blackall; Mya Breitbart; Forest Rohwer; Katherine D McMahon; Philip Hugenholtz
A bacterial metapopulation adapts locally to phage predation despite global dispersal.
Genome research 2008;18(2):293-7.
2008: Victor Kunin; Jeroen Raes; J Kirk Harris; John R Spear; Walker Jeffrey; Natalia Ivanova; Christian von Mering; Brad M Bebout; Norman R Pace; Peer Bork; Philip Hugenholtz
Millimeter-scale genetic gradients and community-level molecular convergence in a hypersaline microbial mat.
Molecular systems biology 2008;4():198.
2007: Falk Warnecke; Peter Luginbühl; Natalia Ivanova; Majid Ghassemian; Toby Richardson; Justin T Stege; Michelle Cayouette; Alice C McHardy; Gordana Djordjevic; Nahla Aboushadi; Rotem Sorek; Susannah G Tringe; Mircea Podar; Hector Garcia Martin; Victor Kunin; Daniel Dalevi; Julita Madejska; Edward Kirton; Darren Platt; Ernest Szeto; Asaf Salamov; Kerrie Barry; Natalia Mikhailova; Nikos Kyrpides; Eric G Matson; Elizabeth A Ottesen; Xinning Zhang; Myriam Hernández; Catalina Murillo; Luis G Acosta; Isidore Rigoutsos; Giselle Tamayo; Brian D Green; Cathy Chang; Edward M Rubin; Eric J Mathur; Dan E Robertson; Philip Hugenholtz; Jared R Leadbetter
Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite.
Nature 2007;450(7169):560-5.
2007: Shengyin Gu; Iain Anderson; Victor Kunin; Michael Cipriano; Simon Minovitsky; Gunther Weber; Nina Amenta; Bernd Hamann; Inna Dubchak
TreeQ-VISTA: an interactive tree visualization tool with functional annotation query capabilities.
Bioinformatics (Oxford, England) 2007;23(6):764-6.
2007: Atanas Kamburov; Leon Goldovsky; Shiri Freilich; Aliki Kapazoglou; Victor Kunin; Anton J Enright; Athanasios Tsaftaris; Christos Ouzounis
Denoising inferred functional association networks obtained by gene fusion analysis.
BMC genomics 2007;8():460.
2007: Victor Kunin; Rotem Sorek; Philip Hugenholtz
Evolutionary conservation of sequence and secondary structures in CRISPR repeats.
Genome biology 2007;8(4):R61.
2006: Héctor García Martín; Natalia Ivanova; Victor Kunin; Falk Warnecke; Kerrie W Barry; Alice C McHardy; Christine Yeates; Shaomei He; Asaf Salamov; Ernest Szeto; Eileen Dalin; Nicholas Putnam; Harris J Shapiro; Jasmyn L Pangilinan; Isidore Rigoutsos; Nikos Kyrpides; Linda L Blackall; Katherine D McMahon; Philip Hugenholtz
Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities.
Nature biotechnology 2006;24(10):1263-9.
2006: Victor M Markowitz; Natalia Ivanova; Krishna Palaniappan; Ernest Szeto; Frank Korzeniewski; Athanasios Lykidis; Iain Anderson; Konstantinos Mavromatis; Konstantinos Mavrommatis; Victor Kunin; Hector Garcia Martin; Inna Dubchak; Philip Hugenholtz; Nikos Kyrpides
An experimental metagenome data management and analysis system.
Bioinformatics (Oxford, England) 2006;22(14):e359-67.
2006: Christos Ouzounis; Victor Kunin; Nikos Darzentas; Leon Goldovsky
A minimal estimate for the gene content of the last universal common ancestor--exobiology from a terrestrial perspective.
Research in microbiology 2006;157(1):57-68.
2005: Leon Goldovsky; Paul Janssen; Dag Ahrén; Benjamin Audit; Ildefonso Cases; Nikos Darzentas; Anton J Enright; Núria López-Bigas; José Manuel Peregrin-Alvarez; Mike Smith; Sophia Tsoka; Victor Kunin; Christos Ouzounis
CoGenT++: an extensive and extensible data environment for computational genomics.
Bioinformatics (Oxford, England) 2005;21(19):3806-10.
2005: Mike Smith; Victor Kunin; Leon Goldovsky; Anton J Enright; Christos Ouzounis
MagicMatch--cross-referencing sequence identifiers across databases.
Bioinformatics (Oxford, England) 2005;21(16):3429-30.
2005: Victor Kunin; Leon Goldovsky; Nikos Darzentas; Christos Ouzounis
The net of life: reconstructing the microbial phylogenetic network.
Genome research 2005;15(7):954-9.
2005: Victor Kunin; Sarah A Teichmann; Martijn A Huynen; Christos Ouzounis
The properties of protein family space depend on experimental design.
Bioinformatics (Oxford, England) 2005;21(11):2618-22.
2005: Paul Janssen; Leon Goldovsky; Victor Kunin; Nikos Darzentas; Christos Ouzounis
Genome coverage, literally speaking. The challenge of annotating 200 genomes with 4 million publications.
EMBO reports 2005;6(5):397-9.
2005: Peter D Karp; Christos Ouzounis; Caroline Moore-Kochlacs; Leon Goldovsky; Pallavi Kaipa; Dag Ahrén; Sophia Tsoka; Nikos Darzentas; Victor Kunin; Núria López-Bigas
Expansion of the BioCyc collection of pathway/genome databases to 160 genomes.
Nucleic acids research 2005;33(19):6083-9.
2005: Victor Kunin; Christos Ouzounis
Clustering the annotation space of proteins.
BMC bioinformatics 2005;6():24.
2005: Victor Kunin; Dag Ahren; Leon Goldovsky; Paul Janssen; Christos Ouzounis
Measuring genome conservation across taxa: divided strains and united kingdoms.
Nucleic acids research 2005;33(2):616-21.
2004: Victor Kunin; Jose Pereira-Leal; Christos Ouzounis
Functional evolution of the yeast protein interaction network.
Molecular biology and evolution 2004;21(7):1171-6.
2004: Yang Liu; Paul M Harrison; Victor Kunin; Mark Gerstein
Comprehensive analysis of pseudogenes in prokaryotes: widespread gene decay and failure of putative horizontally transferred genes.
Genome biology 2004;5(9):R64.
2003: Anton J Enright; Victor Kunin; Christos Ouzounis
Protein families and TRIBES in genome sequence space.
Nucleic acids research 2003;31(15):4632-8.
2003: Paul Janssen; Anton J Enright; Benjamin Audit; Ildefonso Cases; Leon Goldovsky; Nicola Harte; Victor Kunin; Christos Ouzounis
COmplete GENome Tracking (COGENT): a flexible data environment for computational genomics.
Bioinformatics (Oxford, England) 2003;19(11):1451-2.
2003: Victor Kunin; Christos Ouzounis
GeneTRACE-reconstruction of gene content of ancestral species.
Bioinformatics (Oxford, England) 2003;19(11):1412-6.
2003: Victor Kunin; Christos Ouzounis
The balance of driving forces during genome evolution in prokaryotes.
Genome research 2003;13(7):1589-94.
2003: Christos Ouzounis; Richard M R Coulson; Anton J Enright; Victor Kunin; Jose Pereira-Leal
Classification schemes for protein structure and function.
Nature reviews. Genetics 2003;4(7):508-19.
2003: Paul Janssen; Benjamin Audit; Ildefonso Cases; Nikos Darzentas; Leon Goldovsky; Victor Kunin; Nuria Lopez-Bigas; José Manuel Peregrin-Alvarez; Jose Pereira-Leal; Sophia Tsoka; Christos Ouzounis
Beyond 100 genomes.
Genome biology 2003;4(5):402.
2003: Victor Kunin; Ildefonso Cases; Anton J Enright; Victor de Lorenzo; Christos Ouzounis
Myriads of protein families, and still counting.
Genome biology 2003;4(2):401.
2001: Victor Kunin; B Chan; Einat Sitbon; G Lithwick; Shmuel Pietrokovski
Consistency analysis of similarity between multiple alignments: prediction of protein function and fold structure from analysis of local sequence motifs.
Journal of molecular biology 2001;307(3):939-49.
2001: E Arons; Victor Kunin; Chana Schechter; Rachel Ehrlich
Organization and functional analysis of the mouse transporter associated with antigen processing 2 promoter.
Journal of immunology (Baltimore, Md. : 1950) 2001;166(6):3942-51.
2000: Victor Kunin
A system of two polymerases--a model for the origin of life.
Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life 2000;30(5):459-66.