Publications
2013
[H13] Hellmuth, M. (2013).
On the Complexity of Recognizing S-composite and S-prime Graphs,
Discrete Appl. Math., 161, 7-8, 1006-1013, 2013
[SMK+13] NetworkTrail - A web service for identifying and visualizing deregulated subnetworks. Daniel Stöckel, Oliver Müller, Tim Kehl, Andreas Gerasch, Christina Backes, Alexander Rurainski, Andreas Keller, Michael Kaufmann and Hans-Peter Lenhof. Bioinformatics (2013) doi: 10.1093/bioinformatics/btt204 [Epub ahead of print]
[HLS13] Hellmuth, M., Leydold, J. & Stadler, P.F. (2013).
Convex Cycle Bases
Ars Math. Contemporanea, 7, 1, 123-140, 2014
[DLL+13]
Dehof, A.K., Loew, S., Lenhof, H.-P., & Hildebrandt, A. (2013).
NightShift: NMR Shift Inference by General Hybrid Model Training - a Framework for NMR Chemical Shift Prediction.
BMC Bioinformatics. 2013 Mar 16;14(1):98. [Epub ahead of print]
[LBH+13] D Li, C Beisswenger, C Herr, J Hellberg, G Han, T Zakharkina, M Voss, R Wiewrodt, R M Bohle, M D Menger, R M Schmid, D Stöckel, H-P Lenhof and R Bals. Myeloid cell RelA/p65 promotes lung cancer proliferation through Wnt/β-catenin signaling in murine and human tumor cells. Oncogene, doi: 10.1038/onc.2013.75, 25 January 2013 [EPub ahead of print]
2012
[RHH+12] Rosales, M. H., Hellmuth, M., Huber, K. T., Moulton, V., Wieseke, N. & Stadler, P.F. (2012).
From Event-Labeled Gene Trees to Species Trees,
BMC Bioinformatics, 13, Suppl 19, S6, 2012
[SBN+12]
Schmitt, J., Backes, C., Nourkami-Tutdibi, N., Leidinger, P., Deutscher, S., Beier, M., Gessler, M., Graf, N., Lenhof, H.-P., Keller, A. & Meese, E. (2012). Treatment-independent miRNA signature in blood of wilms tumor patients.
BMC Genomics. 2012 Aug 7;13(1):379. [Epub ahead of print]
[NSM+12]
Nickels, S, Sminia, H, Mueller, S, Kools, B, A.K. Dehof, H.-P. Lenhof, and A. Hildebrandt: (2012) ProteinScanAR - An augmented reality web application for high school education in biomolecular life sciences. Proceedings of the 6th International Symposium on Information Visualization in Biomedical Informatics (IVBI 2012).
[GHS12] Gringmann, L., Hellmuth, M. & Stadler, P.F. (2012).
The Cartesian Product of Hypergraphs,
Journal of Graph Theory, 70, 2, 180-196, 2012
[HGS12] Hellmuth, M., Gringmann, L., Stadler, P.F. (2012).
Diagonalized Cartesian Products of S-prime graphs are S-prime,
Discrete Mathematics, 312, 1, 74-80, 2012
[BDZ+12]
Bogojeska, J., Stöckel, D., Zazzi, Z., Rolf, K., Francesca, I., Michal, R-Z., Lengauer, T.
History-alignment models for bias-aware prediction of virological response to HIV combination therapy.
AISTATS 2012.
[HRH+12] Hellmuth, M., Rosales, M.-H., Huber, K. T., Moulton, V., Stadler, P.F., Wieseke, N.
Orthology Relations, Symbolic Ultrametrics, and Cographs,
J. Math. Biol., 2012
[HOS12] Hellmuth, M., Ostermeier, L., Stadler, P.F.,
Minimum Cycle Bases of Lexicographic Products,
Ars Math. Contemporanea, 5, 2, 219–230, 2012
[LKL+12]
Ludwig, N., Keller, A., Leidinger, P., Harz, C., Backes, C., Lenhof, H.-P. & Meese, E. (2012). Is there a general autoantibody signature for cancer?
Eur J Cancer. 2012 Feb 22. [Epub ahead of print]
[LLH+12]
Laczny, C., Leidinger, P., Haas, J., Ludwig, N., Backes, C., Gerasch, A., Kaufmann, M., Vogel, B., Katus, H.-A., Meder, B., Stahler, C., Meese, E., Lenhof, H.-P. & Keller, A. (2012). miRTrail - a comprehensive webserver for analyzing gene and miRNA patterns to enhance the understanding of regulatory mechanisms in diseases.
BMC Bioinformatics, 2012 Feb 22;13(1):36. [Epub ahead of print]
[HOS12] Hellmuth, M., Ostermeier, L., Stadler, P.F.,
A Survey on Hypergraph Products,
Math. Comp. Sci., 6, 1, 1-32, 2012
2011
[BRK+11] Backes, C., Rurainski, A., Klau, G.W., Müller, O., Stöckel, D., Gerasch, A., Küntzer, J., Maisel, D., Ludwig, N., Hein, M., Keller, A., Burtscher, H., Kaufmann, M., Meese, E. & Lenhof, H.-P. (2011). An integer linear programming approach for finding deregulated subgraphs in regulatory networks. Nucleic Acids Res., 2011 Dec. 30 [E pub ahead of print].
[SKN+11]
Schmitt, J., Keller, A., Nourkami-Tutdibi, N., Heisel, S., Habel, N., Leidinger, P., Ludwig, N., Gessler, M., Graf, N., Berthold, F., Lenhof, H.-P. & Meese, E. (2011). Autoantibody signature differentiates wilms tumor patients from neuroblastoma patients. PLoS One, 2011 Dec. 16 [E pub ahead of print].
[SHK+11]
Schmitt, J., Heisel, S., Keller, A., Leidinger, P., Ludwig, N., Habel, N., Furtwängler, R., Nourkami-Tutdibi, N., Wegert, J., Grundy, P., Gessler, M., Graf, N., Lenhof, H.-P. & Meese, E. (2011). Multicenter study identified molecular blood-born protein signatures for Wilms Tumor. Int J Cancer, 2011 Sep. 12 [E pub ahead of print].
[DLH11] Dehof, A.K., Lenhof, H.-P. & Hildebrandt, A. (2011). Predicting Protein NMR Chemical Shifts in the Presence of Ligands and Ions using Force Field-based Features. Proceedings of the German Conference on Bioinformatics (GCB 2011).
[KLB+11]
Keller, A., Leidinger, P., Bauer, A., Elsharawy, A., Haas, A., Backes, C., Wendschlag, A., Giese, N., Tjaden, C., Ott, K., Werner, J., Hackert, T., Ruprecht, K., Huwer, H., Huebers, J., Jacobs, G., Rosenstiel, P., Dommisch, H., Schaefer, A., Müller-Quernheim, J., Wullich, B., Keck, B., Graf, N., Reichrath, J., Vogel, B., Nebel, A., Jager, SU, Staehler, P., Amarantos, I., Biosquerin, V., Staehler, C., Beier, M., Scheffler, M., Büchler, MW., Wischhusen, J., Haeusler, SF, Dietl, J., Hofmann, S., Lenhof, H.-P., Schreiber, S., Katus, HA., Rottbauer, W., Meder, B., Hoheisel, JD., Franke, A. & Meese, E. (2011). Toward the blood-borne miRNome of human diseases. Nat Methods 2011 Sep. 4 [E pub ahead of print].
[BLL+11]
Backes, C., Ludwig, N., Leidinger, P., Harz, C., Hoffmann, J., Keller, A., Meese, E. & Lenhof, H.-P. (2011). Immunogenicity of autoantigens. BMC Genomics, 2011 Jul 4; 12(1):340. [E pub ahead of print].
[SKB+11]
Schuler, M., Keller, A., Backes, C., Phillipar, K., Lenhof, H.-P. & Bauer, P. (2011). Transcriptome analysis by Gene Trail revealed regulation of functional categories in response to alterations of iron homeostasis in Arabidopsis thaliana. BMC Plant Biology, 2011, May, 18, 11:87.
[KML+11]
Küntzer, J., Maisel, D., Lenhof, H.-P., Klostermann, S. & Burtscher H. (2011). The Roche Cancer Genome Database 2.0. BMC Med Genomics, 2011 May 17;4(1):43 [E pub ahead of print].
[KLG+11]
Keller, A., Leidinger, P., Gislefoss, R., Haugen, A., Langseth, H., Staehler, P., Lenhof, H.-P. & Meese, E. (2011). Stable serum miRNA profiles as potential tool for non-invasive lung cancer diagnosis. RNA Biol., 8(3), 506-16,2011. E pub May 1, 2011.
