University of Tuebingen Lehrstuhl Kognitive Systeme, Prof Dr. Zell
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Publications

JCell - a Java based framework for inferring regulatory networks from time series data
C. Spieth, J. Supper, F. Streichert, N. Speer, and A. Zell
Bioinformatics, 22, pp. 2051-2052
Abstract
Comparing Mathematical Models on the Problem of Network Inference
C. Spieth, N. Hassis, F. Streichert, J. Supper, N. Speer, K. Beyreuther, and A. Zell
Genetic and Evolutionary Computation Conference (GECCO 2006), Seattle, USA, to be published
nominated for GECCO Best Paper Award 2006
Comparing Evolutionary Algorithms on the Problem of Network Inference
C. Spieth, R. Worzischek, F. Streichert, J. Supper, N. Speer, and A. Zell
Genetic and Evolutionary Computation Conference (GECCO 2006), Seattle, USA, to be published
Predicting Single Genes Related to Immune-Relevant Processes
C. Spieth, F. Streichert, N. Speer, C. Sinzger, K. Eberhard, and A. Zell
IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB) 2005, San Diego, USA
Proceedings, pp. 461-468, IEEE press
Abstract, [pdf]
Feedback Memetic Algorithms for Modeling Gene Regulatory Networks
C. Spieth, F. Streichert, J. Supper, N. Speer, and A. Zell
IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB) 2005, San Diego, USA
Proceedings, pp. 61-67, IEEE press
Abstract, [pdf]
Reverse Engineering Non-Linear Gene Regulatory Networks Based on the Bacteriophage λ cI Circuit
J. Supper, C. Spieth, and A. Zell
IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB) 2005, San Diego, USA
Proceedings, pp. 325-332, IEEE press
Inferring Regulatory Systems with Noisy Pathway Information
C. Spieth, F. Streichert, N. Speer, and A. Zell
German Conference on Bioinformatics (GCB 2005), Hamburg, Germany
LNI, vol. P-71, pp. 193-203, GI
Abstract, [pdf]
Clustering Based Approach to Identify Solutions for the Inference of Regulatory Networks
Christian Spieth, Felix Streichert, Nora Speer, and Andreas Zell
IEEE Congress on Evolutionary Computation (CEC 2005), Edinburgh, UK
Proceedings, vol. 1, pp. 660-667, IEEE Press
Abstract, [pdf]
Multi-Objective Model Optimization for Inferring Gene Regulatory Networks
Christian Spieth, Felix Streichert, Nora Speer, and Andreas Zell
Conference on Evolutionary Multi-Criterion Optimization (EMO 2005), Guanajuato, Mexico
LNCS 3410, pp. 607620, 2005, Springer-Verlag
Abstract, [pdf]
Optimizing Topology and Parameters of Gene Regulatory Network Models from Time-Series Experiments
Christian Spieth, Felix Streichert, Nora Speer, and Andreas Zell
Genetic and Evolutionary Computation Conference (GECCO 2004), Seattle, USA,
LNCS 3102 (Part I), pp. 461-470, Springer-Verlag
Abstract, [pdf]
A Memetic Inference Method for Gene Regulatory Networks Based on S-Systems
Christian Spieth, Felix Streichert, Nora Speer, and Andreas Zell
IEEE Congress on Evolutionary Computation (CEC 2004), Portland, USA
Proceedings, vol. 1, pp. 152-157, IEEE Press
Abstract, [pdf]
Utilizing an Island Model for EA to Preserve Solution Diversity for Inferring Gene Regulatory Networks
Christian Spieth, Felix Streichert, Nora Speer, and Andreas Zell
IEEE Congress on Evolutionary Computation (CEC 2004), Portland, USA
Proceedings, vol. 1, pp. 146-151, IEEE Press
Abstract, [pdf]
Comparing Genetic Programming and Evolution Strategies on Inferring Gene Regulatory Networks
F. Streichert, H. Planatscher, C. Spieth, H. Ulmer, and A. Zell
Genetic and Evolutionary Computation Conference (GECCO 2004), Seattle, USA,
LNCS 3102 (Part I), pp. 471-480, Springer-Verlag
How to evolve the Head-Tail Pattern from Reaction-Diffusion Systems
F. Streichert, C. Spieth, H. Ulmer, and A. Zell
NASA/DoD Conference on Evolvable Hardware (EH 2004), Seattle, USA,
Proceedings pp. 261-268, IEEE Press
Iteratively Inferring Gene Regulatory Networks with Virtual Knockout Experiments
Christian Spieth, Felix Streichert, Nora Speer, and Andreas Zell
2nd European Workshop on Evolutionary Bioinformatics (evoBIO 2004), Coimbra, Portugal
LNCS 3005, pp. 102-111, Springer-Verlag
Abstract, [pdf]
Evolving the Ability of Limited Growth and Self-Repair for Artificial Embryos
F. Streichert, C. Spieth, H. Ulmer, and Andreas Zell
7th European Conference on Artificial Life (ECAL 03), Dortmund, Germany,
LNAI 2801, pp. 289-298, Springer-Verlag

Posters

Identifying Valid Solutions for the Inference of Regulatory Networks
Christian Spieth, Felix Streichert, Nora Speer, and Andreas Zell
Genetic and Evolutionary Computation Conference (GECCO 2005), Washington DC, USA
Proceedings, pp. 469-471, ACM Press
Abstract, [pdf]
JCell - Inferring Genetic Networks
Christian Spieth, Felix Streichert, Nora Speer, and Andreas Zell
FEBS Workshop on Systems Biology, SysBio 2005, Gosau, Austria
JCell - Inferring Genetic Interactions from DNA Microarray Data
Christian Spieth, Andreas Zell
NGFN Symposium, 20. - 21. November 2004, Berlin

Misc

JCell : a Java framework for inferring genetic networks
Christian Spieth
Technical Report, Universitätsbibliothek Tübingen, 5/2005
URN: urn:nbn:de:bsz:21-opus-17001
URL:http://w210.ub.uni-tuebingen.de/dbt/volltexte/2005/1700/
"Systembiologie - Vom Experiment zur Struktur" (German only)
Christian Spieth
BIOspektrum - Special Edition - 10 Years BIOspektrum, 1/2005, pp. 100-102
"Netzwerke unter der Lupe" (German only)
Christian Spieth, Nora Speer, and Andreas Zell
GenomXpress - Informationen der deutschen Genomforschung, pp. 4-6, September 2004
[pdf]

Supplements

A Pseudo-Linear Model Approach to Infer Gene Regulatory Networks
WABI 2005
C. Spieth, J. Supper, F. Streichert, N. Speer, and A. Zell
[pdf]


Christian Spieth.
http://www.ra.cs.uni-tuebingen.de/software/JCell/publications.html
2004 University of Tübingen, Germany