Publications
2008
[GSH08] Eva Grafahrend-Belau, Falk Schreiber, Monika Heiner, Andrea Sackmann, Björn H. Junker, Stefanie Grundwald, Astrid Speer, Katja Winder and Ina Koch Modularization of biochemical networks based on classification of Petri net t-invariants BMC Bioinformatics, 9:90, 2008.   [GWK08] Eva Grafahrend-Belau, Stephan Weise, Dirk Koschützki, Uwe Scholz, Björn H. Junker and Falk Schreiber MetaCrop - A detailed database of crop plant metabolism Nucleic Acids Research, in press.
2007
[JLH07] B. H. Junker, J. Lonien, L. E. Heady, A. Rogers, J. Schwender Parallel determination of enzyme activities and in vivo fluxes in oilseed embryos reveals minor reprogramming of metabolism upon change in growth conditions Phytochemistry, 68, 2232-2242, 2007.   [KSS07] Dirk Koschützki, Henning Schwöbbermeyer and Falk Schreiber Ranking of network elements based on functional substructures Journal of Theoretical Biology, 248(3): 471-479, 2007.   [KS07] Christian Klukas and Falk Schreiber Dynamic exploration and editing of KEGG pathway diagrams Bioinformatics, 23(3):344-350, 2007.   [TKS07] Michael Telgkamp, Dirk Koschützki, Henning Schwöbbermeyer and Falk Schreiber Community-based linking of biological network resources: Databases, formats and tools International Workshop Integrative Bioinformatics, 4(3): 141-152, 2007.   [RNH07] Hardy Rolletschek, Thuy H. Nguyen, Rainer E. Häusler, Twan Rutten, Cornelia Göbel, Ivo Feussner, Ruslana Radchuk, Annegret Tewes, Bernhard Claus, Christian Klukas, Ute Linemann, Hans Weber, Ulrich Wobus and Ljudmilla Borisjuk Antisense inhibition of the plastidial glucose-6-phosphate/phosphate translocator in Vicia seeds shifts cellular differentiation and promotes protein storage The Plant Journal, 51(3): 468-484, 2007.
2006
[S06] Falk Schreiber Visual analysis of biological networks Habilitation, Universität Passau, Passau, 2006.   [KJS06] Christian Klukas, Björn H. Junker and Falk Schreiber The VANTED software system for transcriptomics, proteomics and metabolomics analysis Journal of Pesticide Science, 31(3):289-292, 2006.   [WGK06] Stephan Weise, Ivo Grosse, Christian Klukas, Dirk Koschützki, Uwe Scholz, Falk Schreiber and Björn H. Junker Meta-All: a system for managing metabolic pathway information BMC Bioinformatics, 7:465, 2006.   [JKS06d] Björn H. Junker, Dirk Koschützki and Falk Schreiber Exploration of biological network centralities with CentiBiN BMC Bioinformatics, 7:219, 2006.   [JWN06] Björn H. Junker, René Wuttke, Adriano Nunes-Nesi, Dirk Steinhauser, Nicolas Schauer, Dirk Büssis, Lothar Willmitzer and Alisdair R. Fernie Enhancing vacuolar sucrose cleavage within the potato tuber has only minor effects on metabolism Plant and Cell Physiology, 47(2):277-289, 2006.   [JKS06a] Björn H. Junker, Christian Klukas and Falk Schreiber VANTED: A System for Advanced Data Analysis and Visualization in the Context of Biological Networks BMC Bioinformatics, 7:109, 2006.   [JKS06c] Björn H. Junker, Christian Klukas und Falk Schreiber VANTED: Datenauswertung im Netzwerk-Kontext GenomXPress, 1:16-18, 2006.   [DHK06] Tim Dwyer, Seok-Hee Hong, Dirk Koschützki, Falk Schreiber and Kai Xu Visual Analysis of Network Centralities Proc. Asia Pacific Symp. Information Visualisation (APVIS 2006), CRPIT 60:189-197, 2006.   [KSS06] Christian Klukas, Falk Schreiber and Henning Schwöbbermeyer Coordinated Perspectives and Enhanced Force-Directed Layout for the Analysis of Network Motifs Proc. Asia Pacific Symp. Information Visualisation (APVIS 2006), CRPIT 60:39-48, 2006.   [JKS06b] Björn H. Junker, Dirk Koschützki and Falk Schreiber Kinetic Modelling with the Systems Biology Modelling Environment SyBME Journal of Integrative Bioinformatics, 3(1):18, 2006.   [ADF06] Adel Ahmed, Tim Dwyer, Michael Forster, Xiaoyan Fu, Joshua Ho, Seok-Hee Hong, Dirk Koschützki, Colin Murray, Nikola S. Nikolov, Ronnie Taib, Alexandre Tarassov and Kai Xu GEOMI: GEOmetry for Maximum Insight Proc. Intl. Symp. Graph Drawing (GD 2005), Springer LNCS 3843:468-479, 2006.
2005
[KKS05] Christian Klukas, Dirk Koschützki and Falk Schreiber Graph Pattern Analysis with PatternGravisto Journal of Graph Algorithms and Applications, 9(1):19-29, 2005.   [SS05a] Falk Schreiber and Henning Schwöbbermeyer Frequency Concepts and Pattern Detection for the Analysis of Motifs in Networks Transactions on Computational Systems Biology, 3(LNBI 3737):89-104, 2005.   [SS05b] Falk Schreiber and Henning Schwöbbermeyer MAVisto: a tool for the exploration of network motifs Bioinformatics, 21(17):3572-3574, 2005.   [RRK05] Hardy Rolletschek, Ruslana Radchuk, Christian Klukas, Falk Schreiber, Ulrich Wobus and Ljudmilla Borisjuk Evidence of a key role for photosynthetic oxygen release in oil storage in developing soybean seeds New Phytologist, 167(3):777-786, 2005.   [KLP05] Dirk Koschützki, Katharina Anna Lehmann, Leon Peeters, Stefan Richter, Dagmar Tenfelde-Podehl and Oliver Zlotowski Centrality Indices In Ulrik Brandes and Thomas Erlebach (Eds.), Network Analysis: Methodological Foundations, Springer LNCS 3418:16-61, 2005.   [JKL05] Riko Jacob, Dirk Koschützki, Katharina Anna Lehmann, Leon Peeters and Dagmar Tenfelde-Podehl Algorithms for Centrality Indices In Ulrik Brandes and Thomas Erlebach (Eds.), Network Analysis: Methodological Foundations, Springer LNCS 3418:62-82, 2005.   [KLT05] Dirk Koschützki, Katharina Anna Lehmann, Dagmar Tenfelde-Podehl and Oliver Zlotowski Advanced Centrality Concepts In Ulrik Brandes and Thomas Erlebach (Eds.), Network Analysis: Methodological Foundations, Springer LNCS 3418:83-111, 2005.   [KJH05] Ina Koch, Björn H. Junker and Monika Heiner Application of Petri net theory for modelling and validation of the sucrose breakdown pathway in the potato tuber Bioinformatics, 21(4):1219-1226, 2005.
2004
[KS04] Dirk Koschützki and Falk Schreiber Comparison of Centralities for Biological Networks Proc. German Conf. Bioinformatics (GCB'04), LNI P-53:199-206, 2004.   [BDS04a] Ulrik Brandes, Tim Dwyer and Falk Schreiber Visual Understanding of Metabolic Pathways Across Organisms Using Layout in Two and a Half Dimensions Journal of Integrative Bioinformatics, 1:0002, 2004   [BHK04] Ljudmilla Borisjuk, Mohammad-Reza Hajirezaei, Christian Klukas, Hardy Rolletschek and Falk Schreiber Integrating Data from Biological Experiments into Metabolic Networks with the DBE Information System In Silico Biology, 5, 0011, 2004.   [BFP04] Franz J. Brandenburg, Michael Forster, Andreas Pick, Marcus Raitner and Falk Schreiber BioPath - Exploration and Visualization of Biochemical Pathways In Michael Jünger und Petra Mutzel (Eds.), Graph Drawing Software, Springer Mathematics and Visualization Series, 215-236, 2004.   [BDS04b] Ulrik Brandes, Tim Dwyer and Falk Schreiber Visual Triangulation of Network-based Phylogenetic Trees Proc. Joint EUROGRAPHICS - IEEE TCVG Symp. on Visualization (VisSym'04), 75-84, 2004.   [SS04] Falk Schreiber and Henning Schwöbbermeyer Towards Motif Detection in Networks: Frequency Concepts and Flexible Search Proc. Intl. Wsh. Network Tools and Applications in Biology (NETTAB'04), 91-102, 2004.   [FS04] Carsten Friedrich and Falk Schreiber Flexible Layering in Hierarchical Drawings with Nodes of Arbitrary Size Proc. Australasian Computer Science Conf. (ACSC 2004), CRPIT 26:369-376, 2004.   [DS04] Tim Dwyer and Falk Schreiber Optimal Leaf Ordering for Two and a Half Dimensional Phylogenetic Tree Visualisation Proc. Australasian Symp. Information Visualisation (InVis.au 2004), CRPIT 35:109-115, 2004.   [DRS04] Tim Dwyer, Hardy Rolletschek and Falk Schreiber Representing Experimental Biological Data in Metabolic Networks Proc. Asia-Pacific Bioinformatics Conf. (APBC 2004), CRPIT 29:13-20, 2004.
2003
[BDS03] Ulrik Brandes, Tim Dwyer and Falk Schreiber Visualizing Related Metabolic Pathways in Two and a Half Dimensions Proc. Intl. Symp. Graph Drawing (GD 2003), Springer LNCS 2912:111-122, 2003.   [FS03] Carsten Friedrich and Falk Schreiber Visualisation and navigation methods for typed protein-protein interaction networks Applied Bioinformatics, 2(Suppl. 3):19-24, 2003.   [S03a] Falk Schreiber Comparison of Metabolic Pathways using Constraint Graph Drawing Proc. Asia-Pacific Bioinformatics Conf. (APBC 2003), CRPIT 19:105-110, 2003.   [S03b] Falk Schreiber Visual Comparison of Metabolic Pathways Journal of Visual Languages and Computing 14(4):327-340, 2003.
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