Dipl. Biol. Marco Mernberger

Knowledge Engineering & Bioinformatics

SHORT CV

Marco Mernberger studied biology at the University of Marburg, Germany, and received his diploma degree in 2004.
The emphasis of his studies were on the fields of genetics, cell biology, microbiology and parasitology, his diploma thesis focused on mass spectrometric analysis of surface proteins in malaria-infected red blood cells. After working as research assistant in the field of immunology at the group of Prof. Dr. Birte Steiniger on the flow-cytometric analysis of macrophages, he additionally started studying computer sciences at the University of Marburg, Germany. Since 2007 he is research assistant at the Knowledge Engineering and Bioinformatics group were he is currently working on his PhD. Additionally, since November 2005, he is working as a freelance lecturer and instructor for MediLearn Repetitorien.

Degree

Diploma in Biology, Philipps-University of Marburg, October 2004

Occupation

• Research staff member, Knowledge Engineering and Bioinformatics group of Prof. Hüllermeier, department of mathematics and computer science, Philipps-University, Marburg, Germany (03/07-present)

• Lecturer for biology and biochemistry, MediLearn Repetitorien, Germany (11/05-present)

• Research staff member, immunology group of Prof. B. Steiniger, department of anatomy and cell biology, University of Marburg (02/05-09/05)

Teaching

• 2010/2011: Methoden der Bioinformatik

• 2009/2010: Methoden der Bioinformatik

• 2008/2008: Einführung in die Bioinformatik
  

Supervised diploma/ master thesis

• Imen Boukhris: "Graph-based similarity of protein binding sites derived from quasi-clique detection", May, 2009

• Marc Koch: "Data Mining auf geometrischen Daten mit Anwendungen in der strukturellen Bioinformatik", October, 2009

• Timo Krotzky: "Analyse und algorithmische Erweiterung von Methoden zum strukturellen Vergleich von Proteinbindestellen (Extension of methods for the structural comparison of protein binding sites)", August, 2010

Publications

2010

Marco Mernberger, Gerhard Klebe, Eyke Hüllermeier
"SEGA - A Semi-Global Approach to Graph Alignment for Approximate Molecular Structure Comparison."
IEEE/ACM Transactions on Computational Biology and Bioinformatics (to appear)

Marco Mernberger, Thomas Fober, Eyke Hüllermeier
"Efficient Similarity Retrieval for Protein Structures based on Histogram Comparison."
German Conference on Bioinformatics, Braunschweig, Germany, September, 2010

2009

Imen Boukhris, Zied Elouedi, Thomas Fober, Marco Mernberger, Eyke Hüllermeier
"Similarity Analysis of Protein Binding Sites: A Generalization of the Maximum Common Subgraph Measure based on Quasi-Clique Detection."
International Conference on Intelligent Systems Design and Applications, Pisa, Italy, November, 2009

Marco Mernberger, Thomas Fober, Ralph Moritz, Eyke Hüllermeier
"Graph-Kernels for the Comparative Analysis of Protein Active Sites."
German Conference on Bioinformatics, Halle (Saale), Germany, September, 2009

Marco Mernberger, Thomas Fober, Vitalik Melnikov, Ralph Moritz, Eyke Hüllermeier
"Extension and Empirical Comparison of Graph-Kernels for the Analysis of Protein Active Sites."
Knowledge Discovery, Data Mining, und Maschinelles Lernen, Darmstadt, Germany, September, 2009

Marco Mernberger, Thomas Fober, Gerhard Klebe, Eyke Hüllermeier
"Evolutionary Construction of Multiple Graph Alignments for the Structural Analysis of Biomolecules."  [Supplement]
Oxford Bioinformatics 25(16): 2110 - 2117, August, 2009

2008

Thomas Fober, Eyke Hüllermeier, Marco Mernberger
"Evolutionary Construction of Multiple Graph Alignments for Mining Structured Biomolecular Data".
Knowledge Discovery, Data Mining, und Maschinelles Lernen, Würzburg, Germany, October, 2008

Thomas Fober, Eyke Hüllermeier, Marco Mernberger
"Evolutionary Construction of Multiple Graph Alignments for the Structural Analysis of Biomolecules".
German Conference on Bioinformatics, Dresden, Germany, September, 2008

2007

Thomas Fober, Eyke Hüllermeier, Marco Mernberger
"Evolutionary Construction of Multiple Graph Alignments for the Structural Analysis of Biomolecules."
17. Workshop Computational Intelligence, Bommerholz, Germany, December, 2007