Tobias Petri

E-Mail:	petri * at * bio.ifi.lmu.de
PGP:	public key
Phone:	+49-89-2180-4042
Address:	Teaching and Research Unit Bioinformatics Institut für Informatik Ludwig-Maximilians-Universität München
	Amalienstr. 17, 80333 Munich, Germany
Raum:	4-08, 4th floor

Research

Network and Pathway Identification
Bos taurus related Systems Biology
Expression Data Analysis
Machine Learning and Biological Application
Graph Kernels

Teaching

I'm always looking for motivated and dedicated students for thesis, research projects and practical courses.

SS 2013	Lectures and Excercises Bioinformatics Pearls
WS 2012/13	Lectures and Excercises, Bioinformatics Pearls
WS 2012/13	Tutor for and organization of the bioinformatics lab course
SS 2012	Tutor and organisation of the Network analysis and expression data lab course
WS 2011/12	Tutor for the seminar course Seminar Bioinformatics I/II
WS 2011/12	Tutor for and organization of the genome-oriented lab course
WS 2011/12	Tutor for and organization of the bioinformatics lab course
SS 2011	Tutor for and organization of the bioinformatics lab course
WS 2010/11	Tutor, Algorithmical Bioinformatics II
WS 2010/11	Tutor for and organization of the genome-oriented lab course
WS 2010/11	Tutor for and organization of the bioinformatics lab course
SS 2010	Tutor, Algorithmical Bioinformatics I
WS 2009/10	Tutor for and organization of the genome-oriented lab course
WS 2009/10	Tutor for and organization of the bioinformatics lab course
SS 2009	Tutor for and organization of the lab course expression data analysis
WS 2008/09	Tutor for and organization of the genome-oriented lab course
WS 2008/09	Tutor for and organization of the bionformatics lab course
SS 2008	Tutor for and organization of the lab course expression data analysis
WS 2007/08	Tutor for and organization of the bionformatics lab course

Publications

Submitted

Papers

Martin MacGuill, Tobias Petri, Ralf Zimmer. On Risk Stratification in Intensive Care Medicine. Journal of Intensive Care Medicine, Submitted.

BibTex

2015

Papers

Tobias Petri, Stefan Altmann, Ludwig Geistlinger, Ralf Zimmer, Robert Küffner. Addressing false discoveries in network inference. Bioinformatics, vol 31, no. 17, pp. 2836-43, September 2015.

BibTex

2013

Papers

Mayuko Kurome, Ludwig Geistlinger, Barbara Keßler, Valeri Zakhartchenko, Nikolai Klymiuk, Annegret Wünsch, Anne Richter, Andrea Bähr, Katrin Krähe, Katinka Burkhardt, Krzysztof Flisikowski, Tatiana Flisikowska, Claudia Merkl, Martina Landmann, Marina Durkovic, Alexander Tschukes, Simone Kraner, Dirk Schindelhauer, Tobias Petri, Alexander Kind, Hiroshi Nagashima, Angelika Schnieke, Ralf Zimmer, Eckhard Wolf. Factors Influencing the Efficiency of Generating Genetically Engineered Pigs by Nuclear Transfer: Multi-Factorial Analysis of a Large Data Set. BMC Biotechnology, vol 13, no. 43, May 2013.

BibTex

Ronny Kramer, Simone Wolf, Tobias Petri, vonDirk Soosten, Sven Dänicke, Eva-Maria Weber, Ralf Zimmer, Juergen Rehage, Gerhard Jahreis. A commonly used rumen-protected conjugated linoleic acid supplement marginally affects fatty acid distribution of body tissues and gene expression of mammary gland in heifers during early lactation. Lipids in Health and Disease, vol 12, no. 96, 2013.

BibTex

K. Danowski, JJ Gross, K. Gellrich, T. Petri, HA Van Dorland, RM Bruckmaier, HD Reichenbach, R. Zimmer, HHD Meyer, FJ Schwarz, H. Kliem. Metabolic status and oestrous cycle in dairy cows. International Journal of Livestock Production, vol 4, no. 9, pp. 135--147, 11 2013.

BibTex

2012

Papers

Robert Küffner, Tobias Petri, Pegah Tavakkolkhah, Lukas Windhager, Ralf Zimmer. Inferring Gene Regulatory Networks by ANOVA. Bioinformatics, vol 28, no. 10, pp. 1376-1382, March 2012.

BibTex

Tobias Petri, Evi Berchtold, Ralf Zimmer, Caroline C. Friedel. Detection and correction of probe-level artefacts on microarrays. BMC Bioinformatics, vol 13, pp. 114, 2012.

BibTex

2011

Papers

Tobias Petri, Robert Küffner, Ralf Zimmer. Experiment Specific Expression Patterns. Vineet Bafna, Cenk S. Sahinalp (eds.): RECOMB 2011, Research in Computational Molecular Biology, LNBI 6577, vol 15, pp. 339-354, Springer, 2011.

BibTex

Dintner Sebastian, Anna Staroń, Evi Berchtold, Tobias Petri, Thorsten Mascher, Susanne Gebhard. Co-evolution of ABC-transporters and two-component regulatory systems as resistance modules against antimicrobial peptides in Firmicutes bacteria. Journal of Bacteriology, vol 193, no. 15, pp. 3851--3862, August 2011.

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2010

Papers

R. Küffner, Tobias Petri, Lukas Windhager, Ralf Zimmer. Petri Nets with Fuzzy Logic (PNFL): Reverse Engineering and Parametrization. PLoS One, vol 5, pp. e12807, 09 2010.

BibTex

2009

Papers

Nino Shervashidze, SVN Vishwanathan, Tobias Petri, Kurt Mehlhorn, Karsten Borgwardt. Efficient Graphlet Kernels for Large Graph Comparison. 12th International Conference on Artificial Intelligence and Statistics (AISTATS), Clearwater Beach, Fl, USA, April, 16-18, 2009, Society for Artificial Intelligence and Statistics, 2009.

BibTex

Fabian Birzele, Gergely Csaba, Florian Erhard, Caroline C. Friedel, R. Küffner, Tobias Petri, Lukas Windhager, Ralf Zimmer. Algorithmische Systembiologie mit Petrinetzen – Von qualitativen zu quantitativen Systemmodellen. Informatik-Spektrum, vol 32, no. 4, pp. 310-319, 2009.

DOI
Journal version

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2007

Papers

K.M. Borgwardt, Tobias Petri, SVN Vishwanathan, H.P. Kriegel. An efficient sampling scheme for comparison of large graphs. Mining and Learning with Graphs, no. 1, Electronic Proceedings, 2007.

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Theses

Tobias Petri. Novel Graph Kernels for Biological Network Comparison. Diploma Thesis, Database and Information Systems/LMU München, 2007.

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Supervised Work

No items found

2015

Papers

Tobias Petri, Stefan Altmann, Ludwig Geistlinger, Ralf Zimmer, Robert Küffner. Addressing false discoveries in network inference. Bioinformatics, vol 31, no. 17, pp. 2836-43, September 2015.

BibTex

Submitted

Papers

Gergely Csaba, Evi Berchtold, Ralf Zimmer. Explaining data via networks - Gene Set Enrichment using Significant Area Search on mined regulatory relation networks. submitted, Submitted.

BibTex

2012

Papers

Tobias Petri, Evi Berchtold, Ralf Zimmer, Caroline C. Friedel. Detection and correction of probe-level artefacts on microarrays. BMC Bioinformatics, vol 13, pp. 114, 2012.

BibTex

Theses

Evi Berchtold. RELEXplain - Relation Networks Explaining Biological Processes. Master Thesis, LFE Bioinformatik / LMU München, 2012.

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2011

Papers

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2010

Theses

Evi Berchtold. Quality Check and Differential Expression Using Newly Synthesized RNA. Bachelor Thesis, LFE Bioinformatik, LMU München, September 2010.

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Submitted

Papers

Martin MacGuill, Tobias Petri, Ralf Zimmer. On Risk Stratification in Intensive Care Medicine. Journal of Intensive Care Medicine, Submitted.

BibTex

2014

Papers

Tatyana Goldberg, Maximilian Hecht, Tobias Hamp, Timothy Karl, Guy Yachdav, Nadeem Ahmed, Uwe Altermann, Philipp Angerer, Sonja Ansorge, Kinga Balasz, Michael Bernhofer, Alexander Betz, Laura Cizmadija, Kieu Trinh Do, Julia Gerke, Robert Greil, Vadim Joerdens, Maximilian Hastreiter, Katharina Hembach, Max Herzog, Maria Kalemanov, Michael Kluge, Alice Meier, Hassan Nasir, Ulrich Neumaier, Verena Prade, Jonas Reeb, Aleksandr Sorokoumov, Ilira Troshani, Susann Vorberg, Sonja Waldraff, Jonas Zierer, Henrik Nielsen, Burkhard Rost. LocTree3 prediction of localization.. Nucleic acids research, vol 42, pp. W350-5, 2014 Jul 2014.

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2011

Theses

Philipp Angerer. Model Based Data Viewing and Analysis. Bachelor Thesis, LFE Bioinformatik, LMU München, September 2011.

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2014

Papers

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2011

Theses

Uwe Altermann. Analysis of Expression Data of Tissue Mixtures. Bachelor Thesis, LFE Bioinformatik, LMU München, October 2011.

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2009

Theses

Stefan Heinisch. Integration of Textmining Priors into Structural Inference of Bayesian Networks. Bachelor Thesis, LFE Bioinformatik / LMU München, March 2009.

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2009

Mark Heron. Network Oriented Analysis of CLA Expression Data. Bachelor Thesis, LFE Bioinformatik, LMU München, November 2009.

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2010

Theses

Florian Goebels. Network Oriented Transfer of Experimental Data Between Organisms. Diploma Thesis, LFE Bioinformatik, LMU München, September 2010.

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Curriculum Vitae

Education
since Nov 2007	PhD Student, RTU Bioinformatics, University of Munich (LMU Munich)
2002-2007	Bioinformatics course, University of Munich (LMU Munich) and Technical University of Munich (TU Munich), Diploma degree (M.sc equiv.)
2001	Abitur, Luitpold-Gymnasium Munich
Working experience and internships
2004-2006	Student Assistant, RTU Bioinformatics, University of Munich (LMU Munich) - Textmining and Expression Data Analysis
2003-2006	Student Assistant, Department of Statistics, University of Munich (LMU Munich) - Web Development and Design
2001-2002	Basic military service (mountain infantry, Bad Reichenhall) and civilian service at old people's home of the monastry St. Anna, Munich
1999-2001	Internship at zeros+ones, Munich, Internet Agency

Personal Interests

I am married and have two children.
Additionally, I'm interested in music and fine arts. Whenever I can spare some time I play the violin and work with computer-aided composition. I am always looking for interesting musical projects. I am an active member of the church music of St. Gabriel in Munich.
I like swimming and enjoy bike- and hiking tours a lot.

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