Dr. Dominik Heider, Dipl.-Inform.

Department: Center for Medical Biotechnology, Department of Bioinformatics Address: Universitaetsstr. 1-5, 45117 Essen, Germany Room: S03 S03 A41 Phone: +49 201 183-3975 Fax: +49 201 183-3437 E-mail: dominik.heider@uni-due.de Bioinformatics research group

Professional Experience:

Mar 2011 - present	Member of the Executive Board, Center for Medical Biotechnology, Essen, Germany
Sep 2009 + Mar 2011	Visiting Professor, Department of Electrical and Electronic Engineering, Universita di Cagliari, Cagliari, Italy
Apr 2009 - present	Visiting Lecturer, Department of Experimental Tumorbiology, University of Muenster, Muenster, Germany
Nov 2008 - present	Postdoctoral Research Associate, Department of Bioinformatics, Center for Medical Biotechnology, University of Duisburg-Essen, Essen, Germany
Oct 2008 - Mar 2009	Adjunct Professor, Institute of Computer Science, University of Muenster, Muenster, Germany
Oct 2006 - Sep 2008	Research Assistant, Department of Experimental Tumorbiology, University of Muenster, Muenster, Germany
Education:
Oct 2006 - Oct 2008	Dr. rer. nat. (eq. Ph.D.), Department of Experimental Tumorbiology, University of Muenster, Muenster, Germany
Oct 2002 - Sep 2006	Diploma in Computer Science (eq. M.C.S.), Institute of Computer Science, University of Muenster, Muenster, Germany

Projects:
DNA-Crypt
GTPasePred
JACVANN
GeneFinder
Interpol


Papers:

1. Dybowski J.N., Riemenschneider M., Hauke S., Pyka M., Verheyen J., Hoffmann D., Heider D.: Improved Bevirimat resistance prediction by combination of structural and sequence-based classifiers, BioData Mining 2011, 4:26
2. Driver J., Heider D., Hauke S., Borschbach M., Pyka M.: Hierarchical Text Clustering Based on Independent Component Analysis, Proceedings of the Computational Linguistics-Applications Conference 2011, Warsaw, Poland, ISBN: 978-83-60810-47-7, 17-21.
3. Winkler J., Armano G., Dybowski J. N., Kuhn O., Ledda F., Heider D.: Computational Design of a DNA- and Fc-binding Fusion Protein, Advances in Bioinformatics 2011, 2011:457578
4. Lederer C., Heider D., van den Boom J., Hoffmann D., Mueller J.W., Bayer P.: Single-domain parvulins constitute a specific marker for recently proposed deep-branching archaeal subgroups, Evolutionary Bioinformatics 2011, 7:135-148.
5. Heider D., Barnekow A.: DNA Watermarking: Challenging Perspectives for Biotechnological Applications, Current Bioinformatics 2011, 6(3):375-382.
6. Hauke S., Pyka M., Heider D.: Group-Agreement as a Reliability Measure for Witness Recommendations in Reputation-Based Trust Protocols, Transactions on Computational Science XII, Lecture Notes in Computer Science 2011, 6670:231-255.
7. Heider D., Hoffmann D.: Interpol: An R package for preprocessing of protein sequences, BioData Mining 2011, 4:16
8. Heider D., Verheyen J., Hoffmann D.: Machine learning on normalized protein sequences, BMC Research Notes 2011, 4:94
9. Pyka M.*, Heider D.*, Hauke S., Kircher T., Jansen A.: Dynamic Causal Modeling with Genetic Algorithms, Journal of Neuroscience Methods 2011, 194(2):402-406. * contributed equally
10. Dybowski J. N., Heider D., Hoffmann D.: Structure of HIV-1 quasi-species as early indicator for switches of co-receptor tropism, AIDS Research and Therapy 2010, 7:41
11. Hauke S., Pyka M., Borschbach M., Heider D.: Reputation-Based Trust Diffusion in Complex Socio-Economic Networks, Information Retrieval and Mining in Distributed Environments, Studies in Computational Intelligence 2010, Springer-Verlag, ISBN 978-3-642-16088-2, 21-40.
12. Hauke S., Pyka M., Heider D.: Towards Improved Trust Diffusion Through Active Recommender Propagation, Systemics and Informatics World Network 2010, 10:121-129
13. Winkler J., Hauke S., Pyka M., Heider D.: JACVANN: A Java Framework For Complex Valued Artificial Neural Networks, Systemics and Informatics World Network 2010, 10:48-55
14. Hauke S., Pyka M., Borschbach M., Heider D.: Augmenting Reputation-based Trust Metrics with Rumor-like Dissemination of Reputation Information, IFIP Advances in Information and Communication Technology 2010, 330:136-147
15. Heider D., Hauke S., Pyka M., Kessler D.: Insights into the classification of small GTPases, Advances and Applications in Bioinformatics and Chemistry 2010, 3:15-24
16. Dybowski J. N.*, Heider D.*, Hoffmann D.: Prediction of co-receptor usage of HIV-1 from genotype, PLoS Comp Biol 2010, 6(4): e1000743. * contributed equally
17. Heider D., Verheyen J., Hoffmann D.: Predicting Bevirimat resistance of HIV-1 from genotype, BMC Bioinformatics 2010, 11:37
18. Pyka M., Hertog M., Fernandez R., Hauke S., Heider D., Dannlowski U. and Konrad C.: fMRI data visualization with BrainBlend and Blender, Neuroinformatics 2010, 8(1): 21-31
19. Pyka M., Beckmann C. F., Schöning S., Hauke S., Heider D., Kugel H., Arolt V., Konrad C.: Impact of working memory load on fMRI resting state pattern in subsequent resting phase, PLoS ONE 2009, 4(9): e7198
20. Heider D., Appelmann J., Bayro T., Dreckmann W., Held A., Winkler J., Barnekow A., Borschbach M.: A computational approach for the identification of small GTPases based on preprocessed amino acid sequences, Technology in Cancer Research and Treatment 2009, 8(5):333-342
21. Heider D., Pyka M., Barnekow A.: DNA watermarks in non-coding regulatory sequences, BMC Research Notes 2009, 2:125
22. Hauke S., Pyka M., Heider D., M. Borschbach: A reputation-based trust framework leveraging the dynamics of complex socio-economic networks for information dissemination, Communications of SIWN 2009, 7:53-58
23. Borschbach M., Hauke S., Pyka M., Heider D.: Opportunities and limitations of a principal component analysis optimized machine learning approach for the identification and classification of cancer involved proteins, Communications of SIWN 2009, 6:85-89
24. Heider D., Kessler D., Barnekow A.: Watermarking sexually reproducing diploid organisms, Bioinformatics 2008, 24(17):1961-1962
25. Heider D., Barnekow A.: DNA watermarks: A proof of concept, BMC Molecular Biology 2008, 9:40
26. Heider D.: A genetic algorithm for producing analogous proteins, Proceedings of the 1st Interdisciplinary Conference on Applied Soft-Computing (ICASC 2008), Muenster, Germany, no pp. given
27. Heider D., Barnekow A.: DNA-based watermarks using the DNA-Crypt algorithm, BMC Bioinformatics 2007, 8:176
28. Braeuning R., Heider D., Jabs S., Kegel P.: YaLiS - Yet another Life Simulation, Technical Report 2006, Institute of Computer Science, University of Muenster, Germany

1. Winkler J., Heider D.: ProteinReactor: A novel algorithm for designing chimeric proteins, Proc. 25th German Conference on Bioinformatics 2010, Braunschweig, Germany
2. Dybowski J.N., Heider D., Hoffmann D.: Prediction of coreceptor usage from HIV-1 genotype and application to deep sequencing, 18th International AIDS Conference (AIDS 2010), Vienna, Austria
3. Winkler J., Heider D.: ProteinReactor: A Genetic Algorithm to Generate Protein Sequences, 6th NanoBio-Europe 2010, Muenster, Germany
4. Dybowski J. N., Heider D., Hoffmann D.: Genotypic Prediction of HIV-1 Coreceptor Usage and Application to Deep Sequencing, RIBS Forum, Essen, Germany
5. Pyka M., Hauke S., Heider D., Dannlowski U., Konrad C.: Modelling effective connectivity in fMRI data with artificial neural networks, Frontiers in Neuroinformatics, 2nd INCF Congress of Neuroinformatics 2009, Pilsen, Czech Republic
6. Borschbach M., Hauke S., Pyka M., Heider D.: A preprocessing scheme to reduce the computational complexity of prediction, identification and classification of cancer involved proteins based on machine learning, 17th International Conference on Computing (CIC 2008), Mexico City, Mexico
7. Heider D., Barnekow A.: DNA watermarks and sexual transmission, Europ. J. Cell Biol. 2008, 87S1, 58
8. Heider D., Barnekow A.: DNA watermarks in living organisms, Proceedings of the GBM Fall Meeting 2007, Hamburg, Germany