27 Publikationen

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  • [27]
    2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2914424
    Sommer, Björn, and Schreiber, Falk. “Integration and virtual reality exploration of biomedical data with CmPI and VANTED”. IT-INFORMATION TECHNOLOGY 59.4 (2017): 181-190.
    PUB | DOI | WoS
     
  • [26]
    2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901345
    Mueller, Sabine C., Sommer, Björn, Backes, Christina, Haas, Jan, Meder, Benjamin, Meese, Eckart, and Keller, Andreas. “From single variants to protein cascades multiscale modeling of single nucleotide variant sets in genetic disorders”. Journal of Biological Chemistry 291.4 (2016): 1582-1590.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [25]
    2014 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2704602 OA
    Biere, Niklas, Doebbe, Anja, Rothe, Nils, Huser, Thomas, Kruse, Olaf, and Sommer, Björn. “Towards a 3D Cell Model of Chlamydomonas reinhardtii (Workshop Abstract)”. Proceedings of the CELLmicrocosmos neXt workshop. Ed. Björn Sommer. Bielefeld: Bielefeld University, 2014. 9-10.
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  • [24]
    2014 | Konferenzband | Veröffentlicht | PUB-ID: 2704570 OA
    Björn Sommer, ed. Proceedings of CELLmicrocosmos neXt 2014. Bielefeld: Bielefeld University, 2014.
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  • [23]
    2014 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2704619 OA
    Wallmeyer, Thorben, Sommer, Björn, and Kormeier, Benjamin. “Towards Pathway Prediction and Subcellular Localization by using FraMeTex (Workshop Abstract)”. Proceedings of the CELLmicrocosmos neXt workshop. Ed. Björn Sommer. Bielefeld: Bielefeld University, 2014. 18-19.
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  • [22]
    2014 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2704665 OA
    Kovanci, Gökhan, and Sommer, Björn. “Towards a Web-based Visualization for the CELLmicrocosmos 4 PathwayIntegration (Workshop Abstract)”. Proceedings of the CELLmicrocosmos neXt workshop. Ed. Björn Sommer. Bielefeld: Bielefeld University, 2014. 14-15.
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  • [21]
    2014 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2704586 OA
    Popik, Olga V., Sommer, Björn, Hofestädt, Ralf, and Ivanisenko, Vladimir A. “Evaluation and Visualization of Pathway Efficiency based on Subcellular Protein Localizations (Workshop Abstract)”. Proceedings of the CELLmicrocosmos neXt workshop. Ed. Björn Sommer. Bielefeld: Bielefeld University, 2014. 9-10.
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  • [20]
    2014 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2704580 OA
    Sommer, Björn. “CELLmicrocosmos X (Workshop Abstract)”. Proceedings of the CELLmicrocosmos neXt workshop. Ed. Björn Sommer. Bielefeld: Bielefeld University, 2014. 5-6.
    PUB | PDF | DOI
     
  • [19]
    2014 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2704564 OA
    Sommer, Björn, and Chen, Ming. “A novel Lecture Program in Bioinformatics: Interdisciplinary Cell Visualization and Modeling (Workshop Abstract)”. Proceedings of the CELLmicrocosmos neXt workshop. Ed. Björn Sommer. Bielefeld, 2014. 20-21.
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  • [18]
    2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2710884
    Popik, Olga V., Saik, Olga V., Petrovskiy, Evgeny D., Sommer, Björn, Hofestädt, Ralf, Lavrik, Inna N., and Ivanisenko, Vladimir A. “Analysis of signaling networks distributed over intracellular compartments based on protein-protein interactions”. BMC Genomics 15.Suppl 12 (2014): S7.
    PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
     
  • [17]
    2014 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2664859
    Lukat, Gunther, Sommer, Björn, and Krüger, Jens. “Membrane simulation analysis using Voronoi tessellation (Conference Abstract)”. Journal of Cheminformatics. Springer Science and Business Media LLC, 2014.Vol. 6. Journal of Cheminformatics.
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  • [16]
    2014 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2693254
    Waltemate, Thomas, Sommer, Björn, and Botsch, Mario. “Membrane Mapping: Combining Mesoscopic and Molecular Cell Visualization”. Proceedings of Eurographics Workshop on Visual Computing for Biology and Medicine. Eurographics Association, 2014. 89-96.
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  • [15]
    2014 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2664837
    Sommer, Björn. “Network Analysis and Integration in a Virtual Cell Environment”. Approaches in Integrative Bioinformatics. Ed. Ming Chen and Ralf Hofestädt. Berlin, Heidelberg: Springer Berlin Heidelberg, 2014. 275-297.
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  • [14]
    2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2661812
    Sommer, Björn, Bender, Christian, Hoppe, Tobias, Gamroth, Christian, and Jelonek, Lukas. “Stereoscopic cell visualization: from mesoscopic to molecular scale”. Journal of Electronic Imaging 23.1 (2014): 11007.
    PUB | DOI | WoS
     
  • [13]
    2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2560817
    Sommer, Björn, Kormeier, Benjamin, Demenkov, Pavel S., Arrigo, Patrizio, Hippe, Klaus, Ates, Özgür, Kochetov, Alexey V., Ivanisenko, Vladimir A., Kolchanov, Nikolay A., and Hofestädt, Ralf. “Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets”. Journal of Bioinformatics and Computational Biology 11.01 (2013): 1340005.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [12]
    2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2645319
    Lukat, Gunther, Krueger, Jens, and Sommer, Björn. “APL@Voro: A Voronoi-Based Membrane Analysis Tool for GROMACS Trajectories”. Journal Of Chemical Information And Modeling 53.11 (2013): 2908-2925.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [11]
    2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2576375
    Sommer, Björn. “Membrane Packing Problems: A short Review on computational Membrane Modeling Methods and Tools”. Computational and Structural Biotechnology Journal 5.6 (2013): e201302014.
    PUB | DOI | PubMed | Europe PMC
     
  • [10]
    2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901699
    Hofestädt, Ralf, Kormeier, Benjamin, Lange, Matthias, Schreiber, Falk, Sommer, Björn, and Weise, Stefan. “Editorial: JIBtools - a Strategy to Reduce the Bioinformatics Analysis Gap”. Journal of Integrative Bioinformatics 10.1 (2013): 226.
    PUB
     
  • [9]
    2012 | Bielefelder E-Dissertation | PUB-ID: 2557380 OA
    Sommer, Björn. CELLmicrocosmos - Integrative cell modeling at the  molecular, mesoscopic and functional level. Bielefeld: Bielefeld University, 2012.
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  • [8]
    2012 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2467408
    Rubert, Sebastian, Gamroth, Christian, Krüger, Jens, and Sommer, Björn. “Grid Workflow Approach using the CELLmicrocosmos 2.2 MembraneEditor and UNICORE to commit and monitor GROMACS Jobs”. CEUR Workshop Proceedings. Ed. Klaus-Dieter Warzecha and Lars Packschies. CEUR-WS, 2012.Vol. 826.
    PUB | Download (ext.)
     
  • [7]
    2011 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2375173
    Sommer, Björn, Dingersen, T., Gamroth, C., Heissmann, A. J., Lukat, G., Rotzoll, R., Rubert, S., Schäfer, A., and Krüger, J. “Coarse-grained and all-atom MD simulations with Gromacs based on CELLmicrocosmos 2.2 model membranes (Conference Abstract)”. Journal of Cheminformatics. Springer Science and Business Media LLC, 2011.Vol. 3. Journal of Cheminformatics.
    PUB | DOI
     
  • [6]
    2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2289773
    Sommer, Björn, Dingersen, Tim, Gamroth, Christian, Schneider, Sebastian E., Robert, Sebastian, Krueger, Jens, and Dietz, Karl-Josef. “CELLmicrocosmos 2.2 Membrane Editor: A Modular Interactive Shape-Based Software Approach To Solve Heterogeneous Membrane Packing Problems”. Journal of Chemical Information and Modeling 51.5 (2011): 1165-1182.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [5]
    2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2374757
    Sommer, Björn, Tiys, E. S, Kormeier, Benjamin, Hippe, Klaus, Janowski, Sebastian Jan, Ivanisenko, T. V, Bragin, A. O, Arrigo, P., Demenkov, P. S, Kochetov, A. V, Ivanisenko, V.A., Kolchanov, N. A., and Hofestädt, Ralf. “Visualization and Analysis of a Cardio Vascular Disease-and MUPP1-related Biological Network combining Text Mining and Data Warehouse Approaches”. Journal of Integrative Bioinformatics 7.1 (2010): 148.
    PUB | DOI | PubMed | Europe PMC
     
  • [4]
    2010 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 1785479 OA
    Sommer, Björn, Dingersen, T., Schneider, S., Rubert, S., and Gamroth, C. “CELLmicrocosmos 2.2: advancements and applications in modeling of three-dimensional PDB membranes (Conference Abstract)”. Journal of Cheminformatics. Springer Science and Business Media LLC, 2010.Vol. 2(Suppl 1):O21. Journal of Cheminformatics.
    PUB | PDF | DOI
     
  • [3]
    2010 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2002601
    Sommer, Björn, Künsemöller, Jörn, Sand, Norbert, Husemann, Arne, Rumming, Madis, and Kormeier, Benjamin. “CELLMICROCOSMOS 4.1, An Interactive Approach to Integrating Spatially Localized Metabolic Networks into a Virtual 3D Cell Environment.”. Presented at the BIOINFORMATICS 2010, Valencia, Spain, INSTICC - Institute for Systems and Technologies of Information, Control and Communication, 2010.
    PUB
     
  • [2]
    2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1929144
    Sommer, Björn. “Membranen für alle”. NACHRICHTEN AUS DER CHEMIE 58.10 (2010): 1030-1032.
    PUB | DOI | WoS
     
  • [1]
    2009 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 1785172 OA
    Sommer, Björn, Dingersen, T., and Schneider, S. “CELLmicrocosmos 2.1: a software approach for the modelling of three-dimensional PDB membranes (Conference Abstract)”. Chemistry Central Journal. Springer Science and Business Media LLC, 2009.Vol. 3(Suppl 1):P72. Chemistry Central Journal.
    PUB | PDF | DOI
     

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