Publications

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2010
Plake C, Schroeder M.  2010.  Computational Polypharmacology with Text Mining and Ontologies. Current Pharmaceutical Biotechnology.
Rueckert F, Dawelbait G, Winter C, Hartmann A, Schroeder M, Schackert HK, Sipos B, Kloeppel G, Kalthoff H, Saeger H-D et al..  2010.  Examination of Apoptosis Signaling in Pancreatic Cancer by Computational Signal Transduction Analysis. PLoS One.
Maisel M, Habisch H, Royer L, Herr A, Milosevic J, Liebau S, Brenner R, Schwarz J, Schroeder M, Storch A.  2010.  Genome-wide expression profiling and functional network analysis upon neuroectodermal conversion of human mesenchymal stem cells suggest HIF-1 and miR-124a as important regulators.. To appear in Experimental Cell Research.
Sauer U, Kneuer C, Tentschert J, Wächter T, Schroeder M, Luch A, Liebsch M, Grune B, Goetz ME.  2010.  A knowledge-based search engine to navigate the information thicket of nanotoxicology. Regulatory Toxicology and Pharmacology.
Marsico A, Scheubert K, Henschel A, Winter C, Winnenburg R, Tuukkanen A, Vassilev B, Schroeder M.  2010.  MeMotif: Structural fragment clustering reveals novel structural and functional motifs in alpha-helical transmembrane proteins.. Nucleic Acids Research. :D181--D189.
Wächter T, Schroeder M.  2010.  Semi-automated ontology generation within OBO-Edit.. Bioinformatics. :i88--i96.
Marsico A, Henschel A, Winter C, Tuukkanen A, Vassilev B, Scheubert K, Schroeder M.  2010.  Structural fragment clustering reveals novel structural and functional motifs in alpha-helical transmembrane proteins.. BMC Bioinformatics.
Tuukkanen A, Henschel A, Huang B, Stewart AF, Schroeder M.  2010.  Structural Modeling of histone methyltransferase complex Set1C from Saccharomyces cerevisiae using constraint-based docking. Proteomics.
Mende S, Royer L, Herr A, Schmiedel J, Deschauer M, Klopstock T, Kostic VS, Schroeder M, Reichmann H, Storch A.  2010.  Whole blood genome-wide expression profiling and network analysis suggest MELAS master regulators. Neurological Research.
Gache V, Waridel P, Winter C, Juhem A, Schroeder M, Shevchenko A, Popov AV.  2010.  Xenopus meiotic microtubule-associated protein interaction network.. PLoS One. :e9248.
2009
Sauer U, Wächter T, Grune B, Doms A, Alvers MR, Spielmann H, Schroeder M.  2009.  Go3R - Semantic Internet Search Engine for Alternative Methods to Animal Testing. ALTEX.
Plake C, Royer L, Winnenburg R, Hakenberg J, Schroeder M.  2009.  GoGene: gene annotation on the fast lane. Nucleic Acid Research.
Dietze H, Alexopolou D, Alvers MR, Barrio-Alvers L, Andreopoulos B, Doms A, Hakenberg J, Mönnich J, Plake C, Reischuck A et al..  2009.  GoPubMed: Exploring PubMed with Ontological Background Knowledge. Bioinformatics for Systems Biology. Humana Press.
Dietze H, Schroeder M.  2009.  GoWeb: A semantic search engine for the life science web. BMC Bioinformatics.
Royer L, Plake C, Schroeder M.  2009.  Identifying hot cancer and novel novel cell-cycle genes from literature. Proceedings of the German Conference on Bioinformatics. Gesellschaft für Informatik.
Winnenburg R, Plake C, Schroeder M.  2009.  Mutation tagging with gene identifiers applied to membrane protein stability prediction. BMC Bioinformatics.
Royer L, Stewart AF, Schroeder M.  2009.  Network compression as a quality measure for protein interaction networks.
Preissner S, Kroll K, Dunkel M, Senger C, Goldsobel G, Kuzman D, Guenther S, Winnenburg R, Schroeder M, Preissner R.  2009.  SuperCYP: a comprehensive database on Cytochrome P450 enzymes including a tool for analysis of CYP-drug interactions. Nucleic Acids Research.
Andreopoulos B, Winter C, Labudde D, Schroeder M.  2009.  Triangle network motifs predict complexes by complementing high-error interactomes with structural information. BMC Bioinformatics.
Oliver H, Diallo G, de Quincey E, Kostkova P, Jawaheer G, Alexopolou D, Habermann B, Stevens R, Jupp S, Khelif K et al..  2009.  A User-Centered Evaluation Framework for the Sealife Semantic Web Browsers. BMC Bioinformatics.
Mende S, Herr A, Schmiedel J, Deschauer M, Klopstock T, Kostic VS, Royer L, Schroeder M, Reichmann H, Storch A.  2009.  Whole blood genome-wide expression profiling of A3243G MELAS patients reveals alternative disease-modifying gene clusters.