Table of Contents

Events

© dkfz.de

• Systems Biology of Human Diseases (SBHD) 2012, May 2-4, 2012, Heidelberg Conference jointly organized by systems biology initiatives from Germany and USA Website: http://www.sbhd2012.org/

Positions

Check the DKFZ job page for up to date offers: www.dkfz.de/de/stellenangebote/index.php

Publications

• How Natural Killers are activated - New publication in Science Signaling, Research Highlight in Nature Reviews: The human immune system has several mechanisms to protect the body from damage by viruses or degenerated own cells. One key mechanism is executed by the so-called natural killer cells (NK cells). These immune cells are capable of selectivly recognizing and killing tumor cells or virus-infected cells. A new joint paper of our group together with the Watzl Lab published in Science Signalling shows how this killing is activated. The paper was also treated as a research highlight in Nature Reviews Immunology
  Original Publication: Mesecke, S., Urlaub, D., Busch, H., Eils, R., & Watzl, C. (2011). Integration of activating and inhibitory receptor signaling by regulated phosphorylation of vav1 in immune cells. Sci Signal, 4(175), ra36. doi: 10.1126/scisignal.2001325
  Research Highlight Feature in Nature Reviews Immunology: Minton, K. (2011). Natural killer cells: NK cells get their VA-VAVoom. Nat Rev Immunol, 11(7), 444-444. doi: 10.1038/nri3008
• Unraveling the Mode of Action of Anti-malaria Drug in Cancer: Publication in the Journal of Biological Chemistry: In a joint publication between the Eils and the Brady group, Hamacher-Brady et al. demonstrate that the anti-malaria drug artesunate potently activates programmed cell death in breast cancer cells
  Hamacher-Brady, A., Stein, H.A., Turschner, S., Toegel, I., Mora, R., Jennewein, N., Efferth, T., Eils, R., and Brady, N.R. (2010). Artesunate Activates Mitochondrial Apoptosis in Breast Cancer Cells via Iron-catalyzed Lysosomal Reactive Oxygen Species Production. The Journal of Biological Chemistry 286, 6587-6601. DOI: 10.1074/jbc.M110.210047.
  
• Publication in Cancer Research: A collaboration between the Klingmüller and the Lichter groups use dynamic pathway modeling to identify ew therapeutic targets in lymphoma cells: Raia, V., M. Schilling, M. Bohm, B. Hahn, A. Kowarsch, A. Raue, C. Sticht, et al. 2010. Dynamic Mathematical Modeling of IL13-induced Signaling in Hodgkin and Primary Mediastinal B-cell Lymphoma Allows Prediction of Therapeutic Targets. Cancer Research doi:10.1158/0008-5472.CAN-10-2987.
• Publication in Nature Biotechnology: In a joint publication with Bernhard Ø Palsson from the University of California, the König/Eils group applied their previously developed PathWave tool to get new insight into the development of Alzheimer's disease: Lewis, Nathan E, Gunnar Schramm, Aarash Bordbar, Jan Schellenberger, Michael P Andersen, Jeffrey K Cheng, Nilam Patel, et al. 2010. Large-scale in silico modeling of metabolic interactions between cell types in the human brain. Nature Biotechnology. doi: 10.1038/nbt.1711.
• Publication in Science: Scientists of the Klingmüller and Timmer group funded by the SBCancer network have published an article in Science on processing ligand-encoded information through the erythropoietin receptor by rapid receptor turnover: Becker, Verena, Marcel Schilling, Julie Bachmann, Ute Baumann, Andreas Raue, Thomas Maiwald, Jens Timmer, and Ursula Klingmüller. 2010. Covering a broad dynamic range: information processing at the erythropoietin receptor. Science 328, no. 5984: 1404-8. doi:10.1126/science.1184913.
• New SBCancer-Publication on mechanisms of apoptosis in Molecular Systems Biology: Leo Neumann, Carina Pforr, Joel Beaudouin, Alexander Pappa, Nicolai Fricker, Peter H Krammer, Inna N Lavrik & Roland Eils. Dynamics within the CD95 death-inducing signaling complex decide life and death of cells. Mol Syst Biol (20) Vol. 6
• A paper on a predictive model of ERK-signaling and its link to cell fate decisions was published in Molecular Systems Biology in a joint effort of the Klingmüller group generating time-resolved quantitative data, the Lehmann group providing quantitative mass spectrometry data and the Timmer group establishing the model: Schilling, M., Maiwald, T., Hengl, S., Winter, D., Kreutz, C., Kolch, W., Lehmann, W.D., Timmer, J., and Klingmüller, U. (2009). Theoretical and experimental analysis links isoform-specific ERK signalling to cell fate decisions. Molecular Systems Biology 5:334 Link: www.nature.com/msb/journal/v5/n1/full/msb200991.html
  
• Inna N. Lavrik, Roland Eils, Nicolai Fricker, Carina Pforr and Peter H. Krammer from SBCancer have published a review on "Understanding apoptosis by systems biology approaches" in Molecular Biosystems: Inna N. Lavrik, Mol. BioSyst., 2009, DOI: 10.1039/b905129p
• The group of Thomas Höfer has published two interesting papers:
  Schulz, E., Mariani, L., Radbruch, A., and Höfer, T. (2009) Sequential polarization and imprinting of T-helper type 1 differentiation by interferon-γ and interleukin-12. Immunity, 30, 673-683.
  Salazar, C. and Höfer, T. (2009) Multisite protein phosphorylation: From molecular mechanisms to kinetic models. FEBS J., 276, 3177-3198.[06/2009]

Past Activities

• International Conference on Systems Biology - ICSB 2011, August 28- Sep. 01, 2011, Heidelberg/ Mannheim: www.icsb-2011.net
• Systems Biology of Human Diseases (SBHD) 2011, June 22-24, 2011, Boston, Conference jointly organized by systems biology initiatives from Germany and USA
  Website: www.csb2.org
• Systems Biology of Human Disease Conference, June 16-19, 2010, Boston (Co-Organized between Helmholtz Alliance on Systems Biology, ForSys and Harvard Medical School)
  
• Binational Workshop on Systems Biology, April 25-29, 2010, Ouro Preto, Brasilien - http://lgmb.fmrp.usp.br/sbmeeting2010/
• Practical Course on High-throughput RNAi February 08 – 12, 2010, BioQuant (INF 267)
• Next BioQuant Modeling Club: Friday, January 29, 2010, 10:00-11:30
  Speakers: Anna Matveeva (German Cancer Research Center): Mathematical modeling of heterochromatin formation and Nurgazy Sulaimanov (University of Heidelberg): Modeling HCV replication; Location: BioQuant (INF 267) - Lecture Hall SR041
• Mid-Term Review of the Helmholtz Alliance on Systems Biology: January, 13-14, 2010, DKFZ Heidelberg
• BioQuant Modeling Club: Friday, November 27, 2009
• BioQuant Modeling Club: Friday, October 30, 2009 Speakers: Barbara di Ventura (University of Heidelberg): "Divide et impera" (Bacterial strategy to partition Min proteins during cytokinesis)and Thorsten Erdmann (University of Heidelberg): The role of spatial averaging in the precision of gene expression patterns
• 2nd Status Seminar of the Helmholtz Alliance on Systems Biology, October 26-27, 2009
  Location: Heidelberg, DFKZ Joint Meeting of the Helmholtz Alliance on Systems Biology
• Workshop Data 2 Dynamics - D2D, September 23-25, 2009 Location: Kardinal-Döpfner-Haus, Freising, Germany
  Organisation: Fabian Theis, HMGU und Hauke Busch, Universität Freiburg
• BioQuant Modeling Club: Friday, June 26, 2009 Speakers: Angela Stevens (University of Heidelberg, Applied Mathematics and BioQuant): Cell Motion and Self-organization and Sebastian J. Streichan (EMBL): Migration in Cell Collectives
  
• Summer School: Mathematical Modeling in Cell Biology June, 10-12, 2009, BioQuant, Heidelberg
  Organized by Thomas Höfer - supported by SBCancer, ViroQuant and EU-Network Sybilla
  See: http://www.dkfz.de/en/sbcancer/modeling-school2009.html for further details
• BioQuant Modeling Club: Friday, May 29, 2009; Speakers: Bashar Ibrahim (DKFZ, AG Pereira) and Stefan Legewie (DKFZ/BioQuant, AG Eils)
  
• The Helmholtz Alliance on Systems Biology and ForSys, together with other research initiatives, are organizing the German Symposium on Systems Biology to be held on May, 12 - 15 2009 in Heidelberg. Further information is available at www.sysbio2009.de.
  All SBCancer members and interested scientists are invited to attend! [20.10.2008]
• 2nd SBCancer Retreat - May 4-5, 2009
  
• 2nd Helmholtz Alliance on Systems Biology Spring School on Systems Biology on April 06-09, 2009 in Kloster Seeon 
  For further information please visit: http://mips.gsf.de/staff/roemisch/spring09/  
  
• Submodule III meeting - March 9, 20009, BioQuant
• BioQuant Modeling Club Friday, March 6, 2009 10:00-11:30
  Johanna Mazur (BioQuant/ViroQuant, AG Kaderali) Reconstructing Nonlinear Dynamic Models of Gene Regulation using Stochastic Sampling
  Irina Surovtsova/Natalia Simus (BioQuant, AG Kummer) Time-dependent complexity reduction methods for biochemical systems
  Location: BioQuant (INF 267) - Lecture Hall SR041
• BioQuant Modeling Club on Chemotaxis
  Friday, January 30, 2009 10:00-11:30
  Franziska Matthäus (IWR): Superdiffusion and chemotaxis of E.coli
  Nikita Vladimirov (ZMBH): A hybrid model of chemotactic E. coli: multiscale approach
  
• First Edition of the BioQuant Modeling Club:
  BioQuant Modeling Club Santa Claus Kick-Off on Friday, December 5, 2008, 10 am in BioQuant, INF267, SR041.
  The first presentations will be:
  Sven Sahle - Advanced features of Copasi and Ursula Kummer - Feedback loops and dynamics of TGFbeta signaling-computational insights
  Download the flyer. [2008/11/27]
• A team of students from Heidelberg is competing in the
  iGEM-competition, a world-wide competition on the development of genetically engineered machings organized by the MIT in Boston. The students are supervised by members of the department of Roland Eils (DKFZ) and Victor Sourjik (ZMBH) and are supported by SBCancer. Further Information about the project named "ECOLINCE TO KILL" is available on the team's website at http://2008.igem.org/Team:Heidelberg [08/2008]
• First Statusseminar of the Helmholtz Alliance on Systems Biology
  June, 22-24, 2008 - Kongresshotel am Templiner See, Potsdam
  
• First Helmholtz Alliance on Systems Biology Spring School
  April, 23-26, 2008 at Kloster Seeon, Bavaria - details to follow
  
• Training Workshop: "Image based high-throughput screening methods and tools for pathway modeling"
  May, 13-15, 2008 - BIOQUANT, Heidelberg
  Organizers: Endocyte, SBCancer and VIROQUANT
  
• Helmholtz-Russian Workshop on Systems Biology 2008
  February, 27-29th, 2008, Moscow
  
• First SBCancer Retreat - Pfalzhotel Asselheim (Grünstadt)
  3rd and 4th of December, 2007
  
• SBCancer Submodule 3 Meeting, Thursday, 18th of October, 4:00pm, BIOQUANT, Seminar Room 043
  
• SBCancer Submodule 1 and 2 Meeting
  Friday, 20th of July, 2:00 pm, BIOQUANT, Seminar-Room