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Vladimir Mironov

Vladimir Mironov

Senior Engineer
Department of Biology

vladimir.mironov@ntnu.no
+4773550350 +4773550349 Realfagbygget, DU2-141, Gløshaugen, Høgskoleringen 5
ResearchGate Expertise and activities
Publications Media

Publications

  • Chronological
  • By category
  • See all publications in Cristin

2020

  • Puig, Rafael Riudavets; Holmås, Stian; Mironov, Vladimir; Kuiper, Martin. (2020) Network Building with the Cytoscape BioGateway App Explained in Five Use Cases. Current Protocols in Bioinformatics. volum 72 (1).
    Academic article

2019

  • Holmås, Stian; Riudavets Puig, Rafael; Acencio, Marcio Luis; Mironov, Vladimir; Kuiper, Martin. (2019) The Cytoscape BioGateway App: explorative network building from an RDF store. Bioinformatics.
    Academic article

2017

  • Nordgård, Anna Synnøve Røstad; Bergland, Wenche Hennie; Vadstein, Olav; Mironov, Vladimir; Bakke, Rune; Østgaard, Kjetill; Bakke, Ingrid. (2017) Anaerobic digestion of pig manure supernatant at high ammonia concentrations characterized by high abundances of Methanosaeta and non-euryarchaeotal archaea. Scientific Reports. volum 7:15077.
    Academic article

2014

  • Blondé, Ward; Antezana, Erick; Mironov, Vladimir; Schulz, Stefan; Kuiper, Martin; De baets, Bernard. (2014) Using the relation ontology Metarel for modelling Linked Data as multi-digraphs. Semantic Web Journal. volum 5 (2).
    Academic article
  • Mironov, Vladimir; Kuiper, Martin; Ekseth, Ole Kristian. (2014) OrthAgogue: An agile tool for the rapid prediction of orthology relations. Bioinformatics. volum 30 (5).
    Academic article
  • Venkatesan, Aravind; Tripathi, Sushil; Sanz de Galdeano, Alejandro; Blondé, Ward; Lægreid, Astrid; Mironov, Vladimir; Kuiper, Martin. (2014) Finding gene regulatory network candidates using the gene expression knowledge base. BMC Bioinformatics. volum 15 (1).
    Academic article

2013

  • Antezana, Erick; Mironov, Vladimir; Kuiper, Martin. (2013) The emergence of Semantic Systems Biology. New Biotechnology. volum 30 (3).
    Academic article
  • Kuiper, Martin; Antezana, Erick; Mironov, Vladimir. (2013) Cell Cycle Ontology (CCO).
    Web pages (information material)

2012

  • Kuiper, Martin; Venkatesan, Aravind; Antezana, Erick; Vercruysse, Steven; Mironov, Vladimir; Blondé, Ward. (2012) Putting Semantics in Systems Biology. META. volum 2012 (3).
    Article
  • Mironov, Vladimir; Seethappan, Nirmala; Blondé, Ward; Antezana, Erick; Splendiani, Andrea; Kuiper, Martin. (2012) Gauging triple stores with actual biological data. BMC Bioinformatics. volum 13.
    Academic article

2011

  • Blondé, Ward; Mironov, Vladimir; Venkatesan, Aravind; Antezana, Erick; De baets, Bernard; Kuiper, Martin. (2011) Reasoning with bio-ontologies: using relational closure rules to enable practical querying. Bioinformatics. volum 27 (11).
    Academic article
  • Mironov, Vladimir; Antezana, Erick; Egaña, Mikel; Blondé, Ward; De baets, Bernard; Kuiper, Martin; Stevens, Robert. (2011) Flexibility and utility of the cell cycle ontology. Applied Ontology. volum 6 (3).
    Academic article

2010

  • Antezana, Erick; Venkatesan, Aravind; Mungall, Chris; Mironov, Vladimir; Kuiper, Martin. (2010) ONTO-ToolKit: enabling bio-ontology engineering via Galaxy. BMC Bioinformatics. volum 11.
    Academic article

2009

  • Antezana, E; Kuiper, Martin; Mironov, Vladimir. (2009) Biological knowledge management: the emerging role of the Semantic Web technologies. Briefings in Bioinformatics. volum 10 (4).
    Scientific translation/review
  • Antezana, Erick; Blondé, Ward; Egaña, Mikel; Rutherford, Alistair; Stevens, Robert; De baets, Bernard; Mironov, Vladimir; Kuiper, Martin. (2009) BioGateway: A Semantic Systems Biology Tool for the Life Sciences. BMC Bioinformatics. volum 10 (S11).
    Academic article

Scientific articles

  • Puig, Rafael Riudavets; Holmås, Stian; Mironov, Vladimir; Kuiper, Martin. (2020) Network Building with the Cytoscape BioGateway App Explained in Five Use Cases. Current Protocols in Bioinformatics. volum 72 (1).
    Academic article
  • Holmås, Stian; Riudavets Puig, Rafael; Acencio, Marcio Luis; Mironov, Vladimir; Kuiper, Martin. (2019) The Cytoscape BioGateway App: explorative network building from an RDF store. Bioinformatics.
    Academic article
  • Nordgård, Anna Synnøve Røstad; Bergland, Wenche Hennie; Vadstein, Olav; Mironov, Vladimir; Bakke, Rune; Østgaard, Kjetill; Bakke, Ingrid. (2017) Anaerobic digestion of pig manure supernatant at high ammonia concentrations characterized by high abundances of Methanosaeta and non-euryarchaeotal archaea. Scientific Reports. volum 7:15077.
    Academic article
  • Blondé, Ward; Antezana, Erick; Mironov, Vladimir; Schulz, Stefan; Kuiper, Martin; De baets, Bernard. (2014) Using the relation ontology Metarel for modelling Linked Data as multi-digraphs. Semantic Web Journal. volum 5 (2).
    Academic article
  • Mironov, Vladimir; Kuiper, Martin; Ekseth, Ole Kristian. (2014) OrthAgogue: An agile tool for the rapid prediction of orthology relations. Bioinformatics. volum 30 (5).
    Academic article
  • Venkatesan, Aravind; Tripathi, Sushil; Sanz de Galdeano, Alejandro; Blondé, Ward; Lægreid, Astrid; Mironov, Vladimir; Kuiper, Martin. (2014) Finding gene regulatory network candidates using the gene expression knowledge base. BMC Bioinformatics. volum 15 (1).
    Academic article
  • Antezana, Erick; Mironov, Vladimir; Kuiper, Martin. (2013) The emergence of Semantic Systems Biology. New Biotechnology. volum 30 (3).
    Academic article
  • Mironov, Vladimir; Seethappan, Nirmala; Blondé, Ward; Antezana, Erick; Splendiani, Andrea; Kuiper, Martin. (2012) Gauging triple stores with actual biological data. BMC Bioinformatics. volum 13.
    Academic article
  • Blondé, Ward; Mironov, Vladimir; Venkatesan, Aravind; Antezana, Erick; De baets, Bernard; Kuiper, Martin. (2011) Reasoning with bio-ontologies: using relational closure rules to enable practical querying. Bioinformatics. volum 27 (11).
    Academic article
  • Mironov, Vladimir; Antezana, Erick; Egaña, Mikel; Blondé, Ward; De baets, Bernard; Kuiper, Martin; Stevens, Robert. (2011) Flexibility and utility of the cell cycle ontology. Applied Ontology. volum 6 (3).
    Academic article
  • Antezana, Erick; Venkatesan, Aravind; Mungall, Chris; Mironov, Vladimir; Kuiper, Martin. (2010) ONTO-ToolKit: enabling bio-ontology engineering via Galaxy. BMC Bioinformatics. volum 11.
    Academic article
  • Antezana, Erick; Blondé, Ward; Egaña, Mikel; Rutherford, Alistair; Stevens, Robert; De baets, Bernard; Mironov, Vladimir; Kuiper, Martin. (2009) BioGateway: A Semantic Systems Biology Tool for the Life Sciences. BMC Bioinformatics. volum 10 (S11).
    Academic article

Journal publications

  • Kuiper, Martin; Venkatesan, Aravind; Antezana, Erick; Vercruysse, Steven; Mironov, Vladimir; Blondé, Ward. (2012) Putting Semantics in Systems Biology. META. volum 2012 (3).
    Article
  • Antezana, E; Kuiper, Martin; Mironov, Vladimir. (2009) Biological knowledge management: the emerging role of the Semantic Web technologies. Briefings in Bioinformatics. volum 10 (4).
    Scientific translation/review

Media

2019

  • Poster
    Holmås, Stian; Mironov, Vladimir; Kuiper, Martin. (2019) Network building in Cytoscape using the BioGateway App. SWAT4(HC)LS 2019: Semantic Web Applications and Tools for Healthcare and Life Sciences . Albert Burger, Ronald Cornet; Edinburgh. 2019-12-09 - 2019-12-12.

2016

  • Poster
    Bakke, Ingrid; Nordgård, Anna Synnøve Røstad; Bergland, Wenche Hennie; Vadstein, Olav; Mironov, Vladimir; Østgaard, Kjetill; Bakke, Rune. (2016) Microbial community dynamics in anaerobic digestion at high ammonia concentrations. International Symposium on Microbial Ecology ISME 16 . International Society of Microbial Ecology; Montreal. 2016-08-21 - 2016-08-26.

2014

  • Poster
    Kuiper, Martin; Mironov, Vladimir; Venkatesan, Aravind; Tripathi, Sushil; Blondé, Ward; Sanz de Galdeano, Alejandro; Lægreid, Astrid. (2014) The gene expression knowledge base. Virtual Physiological Human Conference 2014 . Stig Omholt / VPH consortium; Trondheim. 2014-09-09 - 2014-09-12.

2012

  • Poster
    Hollunder, Jens; Mironov, Vladimir; Antezana, Erick; Hoehndorf, Robert; Kuiper, Martin. (2012) Profiling of Semantically Annotated Proteins. Semantic Web Applications and Tools for Life Sciences 2012 . SWAT4LS; Paris. 2012-11-28 - 2012-11-30.
  • Poster
    Venkatesan, Aravind; Antezana, Erick; Blondé, Ward; Vercruysse, Steven; Mironov, Vladimir; Kuiper, Martin. (2012) Putting Semantics in Systems Biology. NTNU Bioinformatics Network Seminar 2012 Norwegian Bioinformatics Forum 2012 . Norwegian Bioinformatics Forum; Trondheim. 2012-10-18 - 2012-10-19.
  • Academic lecture
    Venkatesan, Aravind; Mironov, Vladimir; Kuiper, Martin. (2012) Towards an integrated knowledge system for capturing gene expression events. 3rd International Conference on Biomedical Ontology (ICBO 2012) . Stefan Schulz, Catalina Martínez, Markus Kreuzthaler; Graz. 2012-07-21 - 2012-07-25.

2011

  • Academic lecture
    Antezana, Erick; Blondé, Ward; Venkatesan, Aravind; De baets, Bernard; Mironov, Vladimir; Kuiper, Martin. (2011) Semantic SB: enablng integrative biology via SW technologies. WIMS: International Conferences on Web Intelligence, Mining and Semantics. ; Sogndal. 2011-05-25 - 2011-05-27.
  • Academic lecture
    Mironov, Vladimir; Venkatesan, Aravind; Kuiper, Martin. (2011) RDF Foundry - a call for a community effort to harmonize triple store practices. BioHackathon 2011 ; Kyoto University. 2011-08-20 - 2011-08-26.
  • Poster
    Tripathi, Sushil; Venkatesan, Aravind; Egaña, Mikel; Zavareh, Zahra; Chawla, Konika; Mironov, Vladimir; Thommesen, Liv; Bruland, Torunn; Kuiper, Martin; Lægreid, Astrid. (2011) Automated Assessment of High Throughput Hypotheses on Gene Regulatory Mechanisms Involved in the Gastrin Response. Bio-Ontologies 2011 . ISMB 2011; Vienna. 2011-07-15 - 2011-07-16.
  • Academic lecture
    Venkatesan, Aravind; Blondé, Ward; Antezana, Erick; Skillingstad, Mats Gløer Løkås; Marshall, Scott M; De baets, Bernard; Mironov, Vladimir; Kuiper, Martin. (2011) The RDF Foundry: Call for an initiative to build enhanced RDF resources for biological data integration. WIMS: International Conferences on Web Intelligence, Mining and Semantics. ; Sogndal. 2011-05-25 - 2011-05-27.
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