Georgios A Pavlopoulos

Summary

Affiliation: European Molecular Biology Laboratory
Country: Germany

Publications

  1. pmc A survey of visualization tools for biological network analysis
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL, Meyerhofstrasse 1, Heidelberg, Germany
    BioData Min 1:12. 2008
  2. pmc LAITOR--Literature Assistant for Identification of Terms co-Occurrences and Relationships
    Adriano Barbosa-Silva
    Max Delbruck Center for Molecular Medicine, Berlin, Germany
    BMC Bioinformatics 11:70. 2010
  3. pmc GIBA: a clustering tool for detecting protein complexes
    Charalampos N Moschopoulos
    Pattern Recognition Lab, Department of Computer Engineering and Informatics, University of Patras, Patra, Rio, GR 26500, Greece
    BMC Bioinformatics 10:S11. 2009
  4. pmc Arena3D: visualization of biological networks in 3D
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL, Meyerhofstrasse 1, Heidelberg, Germany
    BMC Syst Biol 2:104. 2008
  5. pmc OnTheFly: a tool for automated document-based text annotation, data linking and network generation
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL Meyerhofstrasse 1, Heidelberg
    Bioinformatics 25:977-8. 2009
  6. pmc jClust: a clustering and visualization toolbox
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL Meyerhofstrasse 1, Heidelberg, Germany
    Bioinformatics 25:1994-6. 2009
  7. pmc Using graph theory to analyze biological networks
    Georgios A Pavlopoulos
    Department of Computer Science and Biomedical Informatics, University of Central Greece, Lamia, 35100, Greece
    BioData Min 4:10. 2011
  8. pmc GPCRs, G-proteins, effectors and their interactions: human-gpDB, a database employing visualization tools and data integration techniques
    Venkata P Satagopam
    Structural and Computational Biology Unit, EMBL, Meyerhofstrasse 1, Heidelberg D69117, Germany
    Database (Oxford) 2010:baq019. 2010
  9. pmc Arena3D: visualizing time-driven phenotypic differences in biological systems
    Maria Secrier
    Structural and Computational Biology Unit, European Molecular Biology Laboratory EMBL, Meyerhofstrasse 1, Heidelberg 69117, Germany
    BMC Bioinformatics 13:45. 2012
  10. pmc Data and programs in support of network analysis of genes and their association with diseases
    Panagiota I Kontou
    Department of Computer Science and Biomedical Informatics, University of Thessaly, Papasiopoulou 2 4, Lamia 35100, Greece
    Data Brief 8:1036-9. 2016

Collaborators

Detail Information

Publications14

  1. pmc A survey of visualization tools for biological network analysis
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL, Meyerhofstrasse 1, Heidelberg, Germany
    BioData Min 1:12. 2008
    ..We comment on the functionality, the limitations and the specific strengths of these tools, and how these tools could be further developed in the direction of data integration and information sharing...
  2. pmc LAITOR--Literature Assistant for Identification of Terms co-Occurrences and Relationships
    Adriano Barbosa-Silva
    Max Delbruck Center for Molecular Medicine, Berlin, Germany
    BMC Bioinformatics 11:70. 2010
    ..Therefore, the study of the current literature about a selected topic deposited in public databases, facilitates the generation of novel hypotheses associating a set of bioentities to a common context...
  3. pmc GIBA: a clustering tool for detecting protein complexes
    Charalampos N Moschopoulos
    Pattern Recognition Lab, Department of Computer Engineering and Informatics, University of Patras, Patra, Rio, GR 26500, Greece
    BMC Bioinformatics 10:S11. 2009
    ....
  4. pmc Arena3D: visualization of biological networks in 3D
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL, Meyerhofstrasse 1, Heidelberg, Germany
    BMC Syst Biol 2:104. 2008
    ..Our goal is to enable many thousands of entities to be visualized meaningfully and with high performance...
  5. pmc OnTheFly: a tool for automated document-based text annotation, data linking and network generation
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL Meyerhofstrasse 1, Heidelberg
    Bioinformatics 25:977-8. 2009
    ....
  6. pmc jClust: a clustering and visualization toolbox
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL Meyerhofstrasse 1, Heidelberg, Germany
    Bioinformatics 25:1994-6. 2009
    ..The combination of a simple input file format, a set of clustering and filtering algorithms linked together with the visualization tool provides a powerful tool for data analysis and information extraction...
  7. pmc Using graph theory to analyze biological networks
    Georgios A Pavlopoulos
    Department of Computer Science and Biomedical Informatics, University of Central Greece, Lamia, 35100, Greece
    BioData Min 4:10. 2011
    ..This network profiling combined with knowledge extraction will help us to better understand the biological significance of the system...
  8. pmc GPCRs, G-proteins, effectors and their interactions: human-gpDB, a database employing visualization tools and data integration techniques
    Venkata P Satagopam
    Structural and Computational Biology Unit, EMBL, Meyerhofstrasse 1, Heidelberg D69117, Germany
    Database (Oxford) 2010:baq019. 2010
    ..Database URLs: http://schneider.embl.de/human_gpdb; http://bioinformatics.biol.uoa.gr/human_gpdb/..
  9. pmc Arena3D: visualizing time-driven phenotypic differences in biological systems
    Maria Secrier
    Structural and Computational Biology Unit, European Molecular Biology Laboratory EMBL, Meyerhofstrasse 1, Heidelberg 69117, Germany
    BMC Bioinformatics 13:45. 2012
    ..It uses a layered display to separate different levels of information while emphasizing the connections between them. We present novel developments of the tool for the visualization and analysis of dynamic genotype-phenotype landscapes...
  10. pmc Data and programs in support of network analysis of genes and their association with diseases
    Panagiota I Kontou
    Department of Computer Science and Biomedical Informatics, University of Thessaly, Papasiopoulou 2 4, Lamia 35100, Greece
    Data Brief 8:1036-9. 2016
    ..The methodology and the programs presented in this article are related to the research article entitled "Network analysis of genes and their association with diseases" [1]. ..
  11. pmc Caipirini: using gene sets to rank literature
    Theodoros G Soldatos
    Structural and Computational Biology Unit, European Molecular Biology Laboratory EMBL, Heidelberg, Germany
    BioData Min 5:1. 2012
    ..In this work we present the service 'Caipirini' (http://caipirini.org) that also allows two input sets, but takes the novel approach of allowing ranking of literature based on one or more sets of genes...
  12. doi request reprint BioTextQuest(+): a knowledge integration platform for literature mining and concept discovery
    Nikolas Papanikolaou
    Division of Basic Sciences, University of Crete, Medical School, Heraklion 71110, Greece, Institute of Marine Biology, Biotechnology and Aquaculture IMBBC, Hellenic Centre for Marine Research HCMR, Heraklion, Greece, Luxembourg Centre for Systems Biomedicine LCSB, University of Luxembourg, Campus Belval, 7, avenue des Hauts Fourneaux, L 4362 Esch sur Alzette, Luxembourg, Biological Computation and Process Laboratory BCPL, Chemical Process and Energy Resources Institute CPERI, Centre for Research and Technology Hellas CERTH, PO Box 361, GR 57001 Thessalonica, Greece, Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology Hellas, 70013 Heraklion, Crete, Greece and Department of Biological Sciences, Bioinformatics Research Laboratory, University of Cyprus, PO Box 20537, CY 1678, Nicosia, Cyprus
    Bioinformatics 30:3249-56. 2014
    ....
  13. doi request reprint Network analysis of genes and their association with diseases
    Panagiota I Kontou
    Department of Computer Science and Biomedical Informatics, University of Thessaly, Greece
    Gene 590:68-78. 2016
    ....
  14. pmc A reference guide for tree analysis and visualization
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL, Meyerhofstrasse 1, Heidelberg, Germany
    BioData Min 3:1. 2010
    ..Here we focus on freely available software that offers to the users various tree-representation methodologies for biological data analysis...