Publications

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Filters: Project is [Project Phase 2] Network-based interactive navigation and analysis of large biological datasets  [Clear All Filters]
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Gerasch A, Faber D, Küntzer J, Niermann P, Kohlbacher O, Lenhof H-P, Kaufmann M.  2014.  BiNA: a visual analytics tool for biological network data.
Bielow C, Gröpl C, Kohlbacher O, Reinert K.  2011.  Bioinformatics for Qualitative and Quantitative Proteomics. Bioinformatics for Omics Data: Methods and Protocols. :1-19.
Heinsohn N, Gerasch A, Kaufmann M.  2014.  Boundary Labeling Methods for Dynamic Focus Regions. Pacific Visualization Symposium (PacificVis), 2014 IEEE. :243-247.
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Stöckel D, Lenhof H-P.  2015.  Detecting Dysregulated Processes and Pathways. Nucleic Acids as Molecular Diagnostics. :309-324.
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Alam MJ, Kaufmann M, Kobourov SG, Mchedlidze T.  2014.  Fitting Planar Graphs on Planar Maps. SOFSEM 2014: Theory and Practice of Computer Science. 8327:52-64.
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Backes C, Rurainski A, Klau G, Müller O, Stöckel D, Gerasch A, Küntzer J, Maisel D, Ludwig N, Hein M et al..  2011.  An integer linear programming approach for finding deregulated subgraphs in regulatory networks. Nucleic Acids Res. 40(6):e43
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Laczny C, Leidinger P, Haas J, Ludwig N, Backes C, Gerasch A, Kaufmann M, Vogel B, Katus H-A, Meder B et al..  2012.  miRTrail - a comprehensive webserver for analyzing gene and miRNA patterns to enhance the understanding of regulatory mechanisms in diseases. BMC Bioinformatics. BMC Bioinformatics. 13(1):36
Li D, Beisswenger C, Herr C, Hellberg J, Han G, Zakharkina T, Voss M, Wiewrodt R, Bohle RM, Menger MD et al..  2014.  Myeloid cell RelA/p65 promotes lung cancer proliferation through Wnt/β-catenin signaling in murine and human tumor cells. Oncogene.
Griss J, Jones AR, Sachsenberg T, Walzer M, Gatto L, Hartler J, Thallinger GG, Salek RM, Steinbeck C, Neuhauser N et al..  2014.  The mzTab Data Exchange Format: communicating MS-based proteomics and metabolomics experimental results to a wider audience. Mol. Cell. Prot.. :2765-2775.
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Gerasch A, Küntzer J, Niermann P, Stöckel D, Kaufmann M, Kohlbacher O, Lenhof H-P.  2015.  Network-based interactive navigation and analysis of large biological datasets. it - Information Technology. 57(1):37-48.
Stöckel D, Müller O, Kehl T, Gerasch A, Backes C, Rurainski A, Keller A, Kaufmann M, Lenhof H-P.  2013.  NetworkTrail--a web service for identifying and visualizing deregulated subnetworks. Bioinformatics (Oxford, England). 29(13):1702-3.
Briesemeister S, Rahnenführer J, Kohlbacher O.  2012.  No longer confidential: Estimating the Confidence of Individual Regression Predictions. PLoS One.
Bekos MA, Kaufmann M, Kobourov S, Veeramoni S.  2014.  A note on maximum differential coloring of planar graphs. Journal of Discrete Algorithms. 29:1-7.
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Gerasch A, Kaufmann M, Kohlbacher O.  2014.  Rebuilding KEGG Maps - An integrative approach for visual analytics of metabolic networks. PacificVis 2014. :97-104.
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Bekos M, Kaufmann M, Kobourov S, Symvonis A.  2013.  Smooth Orthogonal Layouts. Journal of Graph Algorithms and Applications. 17:575-595.
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Beck F, Geiger J, Gambaryan S, Veit J, Vaudel M, Nollau P, Kohlbacher O, Martens L, Walter U, Sickmann A et al..  2014.  Time-resolved characterization of cAMP/PKA-dependant signaling reveals that platelet inhibition is a concerted process involving multiple signaling pathways. Blood. 123(4):e1-e10. Abstract