Jörg Wicker, Dipl.-Bioinf.

Research Associate

Room: 03-619

Johannes Gutenberg-Universität Mainz
Institut für Informatik
Staudingerweg 9
55128 Mainz, Germany

E-Mail: wicker@uni-mainz.de

Office Phone: +49-6131-39-21058
Fax number: +49-6131-39-23534

Office Hours:

Tuesday: 15.00-16.00

Research Interests:

Biodegradation, Bioinformatics, Cheminformatics, Data Mining, Inductive Databases, Machine Learning, Multi-Label Classification, Toxicology

Activities:

Conferences and Workshops

Member of the organizing team of Innovation in Predictive Toxicology: OpenTox InterAction Meeting 2011, held in Munich, Germany.
Member of the organizing team of MLSB11, the Fifth International Workshop on Machine Learning in Systems Biology, held in Vienna, Austria.

(Co-)Reviewing

10th International Conference on Data Warehousing and Knowledge Discovery (DaWaK 2008)
18th International Conference on Inutive Logic Programming (ILP 2008)
19th International Conference on Genome Informatics (GIW 2008)
From Local Patterns to Global Models - ECML/PKDD-08 Workshop (LeGo 2008)
19th International Conference on Inductive Logic Programming (ILP 2009)
European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECML PKDD 2009)
IEEE International Conference on Data Mining (ICDM 2009)
ACM Symposium on Applied Computing (SAC-2010) Data Mining Track
27th International Conference on Machine Learning (ICML 2010)
European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECML PKDD 2010)
IEEE International Conference on Data Mining (ICDM 2010)
28th International Conference on Machine Learning (ICML 2011)
15th International Conference on Extending Database Technology (EDBT 2012)
27th Conference on Artificial Intelligence (AAAI 2013)

Publications:

Wicker, J, Pfahringer, B, and Kramer, S (2012).
Multi-Label Classification using Boolean Matrix Decomposition
In: Proceedings of the 27th Symposium On Applied Computing, pp. 498-505, ACM.

Wicker, J, Richter, L, and Kramer, S (2011).
SINDBAD and SiQL: Overview, Applications and Future Developments
In: Inductive Databases and Constraint-Based Data Mining, ed. by Sašo Džeroski, Bart Goethals, Panče Panov. Springer, chap. 12, pp. 289-310.

Hardy, B, Douglas, N, Helma, C, Rautenberg, M, Jeliazkova, N, Jeliazkov, V, Nikolova, I, Benigni, R, Tcheremenskaia, O, Kramer, S, Girschick, T, Buchwald, F, Wicker, J, Karwath, A, Gütlein, M, Maunz, A, Sarimveis, H, Melagraki, G, Afantitis, A, Sopasakis, P, Gallagher, D, Poroikov, V, Filimonov, D, Zakharov, A, Langunin, A, Gloriozova, T, Novikov, S, Skvortsova, N, Druzhilovsky, D, Chawla, S, Gosh, I, Ray, S, Patel, H, and Escher, S (2010).
Collaborative Development of Predictive Toxicology Applications
Journal of Cheminformatics, 2(7).

Wicker, J and Kramer, S (2010).
An Extensive Multi Label Analysis of the ToxCast Data Set
In: 18th European Symposium on Quantitative Structure-Activity Relationships.

Wicker, J, Fenner, K, Ellis, L, Wackett, L, and Kramer, S (2010).
Predicting Biodegradation Products and Pathways: A Hybrid Knowledge-Based and Machine Learning Based Approach
Bioinformatics, 26(6):814-821.

Wicker, J, Fenner, K, Ellis, L, Wackett, L, and Kramer, S (2010).
Predicting Biodegradation Products and Pathways: A Hybrid Knowledge-Based and Machine Learning Based Approach
In: TransCon2010.

Richter, L, Wicker, J, Kessler, K, and Kramer, S (2008).
An Inductive Database and Query Language in the Relational Model
In: Proceedings of the 11th international conference on Extending database technology: Advances in database technology, pp. 740-744, ACM Press.

Wicker, J, Brosdau, C, Richter, L, and Kramer, S (2008).
SINDBAD SAILS: A Service Architecture for Inductive Learning Schemes
In: Proceedings of the 1st Workshop on Third Generation Data Mining: Towards Service-oriented Knowledge Discovery at the European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases 2008, ed. by Nada Lavrač, Joost Kok, Jeroen de Bruin, Vid Podpečan.

Wicker, J, Fenner, K, Ellis, L, Wackett, L, and Kramer, S (2008).
Machine Learning and Data Mining Approaches to Biodegradation Pathway Prediction
In: Proceedings of the Second International Workshop on the Induction of Process Models at ECML PKDD 2008, ed. by Will Bridewell, Toon Calders, Ana Karla de Medeiros, Stefan Kramer, Mykola Pechenizkiy,Ljupco Todorovski.

Wicker, J, Richter, L, Kessler, K, and Kramer, S (2008).
SINDBAD and SiQL: An Inductive Database and Query Language in the Relational Model
In: Machine Learning and Knowledge Discovery in Databases, European Conference, ECML/PKDD 2008, Antwerp, Belgium, September 15-19, 2008, Proceedings, Part II, ed. by Walter Daelemans, Bart Goethals, Katharina Morik, pp. 690-694, Springer.

Kramer, S, Aufschild, V, Hapfelmeier, A, Jarasch, A, Kessler, K, Reckow, S, Wicker, J, and Richter, L (2006).
Inductive Databases in the Relational Model: The Data as the Bridge
In: Proceedings of the Fourth International Workshop on Knowledge Discovery in Databases, pp. 124-138.

Selected Talks and Tutorials:

SINDBAD and SiQL: an Inductive Database and Query Language in the Relational Model, at Institut Jožef Stefan in Ljubljana, December 2009

Short Scientific CV:

since 11/2011		Research Associate at Information Systems Group of the Johannes Gutenberg-Universität Mainz
since 07/2007		PhD student at the Machine Learning and Data Mining in Bioinformatics group of the Technische Universität München
11/2009-12/2009		Guest at the Department of Knowledge Discoveries of Institut Jožef Stefan in Ljubljana
09/2007-08/2011		Algorithm and REST Web Service developer and Researcher on the EU FP7 project OpenTox (Project-No.: HEALTH-F5-2008-200787)
07/2007-09/2011		Research Associate Machine Learning and Data Mining in Bioinformatics group of the Technische Universität München München
2007		Bioinformatics Diploma at Technische Universität München and Ludwig-Maximilans Universität München
09/2000-05/2007		Undergrad studies Bioinformatics at Technische Universität München and Ludwig-Maximilans Universität München

Teaching:

Lectures, seminars, courses

Advanced Seminar Bioinformatics (2007, 2008, 2009, 2010, 2010 at TUM)
Bioinformatics Lab Course (2008, 2009, 2010 at TUM)
Data Mining Seminar (2012, 2013)
Assistant Data Mining Lab Course (2009, 2010, 2011 at TUM) (2012, 2013)
Proseminar Bioinformatik (2009, 2011 at TUM)
System Development Project: Sindbad (2008 at TUM)
Assistant in Lecture Databases I (2012, 2013)
Assistant in Lecture Software Engineering (2012)
Assistant in Lecture Data Mining (2012)
Assistant in Software Engineering Lab Course (2012)
Tutor in Lecture Introduction to Programming (2011)
Tutor in Lecture Machine Learning and Data Mining in Bioinformatics (2009 at TUM)
Assistant in Lecture Machine Learning and Statistical Data Analysis (2012, 2013)

Diploma, Bachelor and Master Thesis

Diploma thesis: Daniela Bieley: Integration of String Mining in an Inductive Data Base (2008 at TUM)
Diploma thesis: Christoph Brosdau: Service oriented Data Mining for biological Data (2008 at TUM)
Bachelor thesis: Julian Lemke: Data Imputation for Multi-Label Classification (2011 at TUM)
Bachelor thesis: Sebastian Lehnerer: Feature and Label-Selection for Multi-Label Classification (2011 at TUM)
Bachelor thesis: Florian Seifert: Data Mining in Medical Databases (2012 at TUM)

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