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GoFORSYS-Seminar

June 24, 2011; 4 p.m.Venue: Seminar Room (Z-1.052/53), Central Building, Max Planck Campus, Golm

Kristian Müller;

Theme: Selecting and Applying Molecular Interaction - from TAT Translocation to Viral Targeting

GoFORSYS -Seminar

May 28, 2011 at 4:00 p.m.in the Seminar Room (Z-1.052/53), Central Building, Max Planck Campus, Golm

Flavia Vischy Winck

Theme: "Deciphering the gene regulatory network in Chlamydomonas under carbon deprivation"

PhD defense

March 15, 2011; 10 a.m.Venue:Potsdam University, Campus Golm, House 25, Room F1.01.

GoFORSYS-Seminar

March 25, 2011 at 4:00 p.m.in the Seminar Room (Z-1.052/53), Central Building, Max Planck Campus, Golm

Dr. Hauke Busch

Theme: "A Systems Theoretic Approach - with Experimental Verification - to Understand Cellular Decisions from Transcriptome Data"
Hauke Busch is Group Leader at the Freiburg Institute for Advanced Studies, Albert-Ludwigs-Universitt Freiburg, Germany
Abstract: Cells initiate and control decisions like migration, proliferation or differentiation through the intricate, yet coordinated, regulation of large gene interaction networks. Interestingly, despite the complexity of cellular networks, there is an universal network response behavior in cells irrespective of the stimulus, cell type  or even organism: upon stimulation few genes show a strong response, while the majority of the genes reacts moderately strong. Here, we argue that the underlying cause for the response similarity abides in the common rules regulating complex systems in general. Using in silico stimulus-response simulations of E. Coli and Yeast networks we show that the underlying cause of the above response patterns are due to the intricate interrelationship of cellular gene network topology and network dynamics. To be precise, highly connected network hubs genes are responding weakly, while strongly responding genes have, on average, a low degree of network connectivity. Being furthermore located at the network periphery, they act as effector genes, tightly linking to the cellular phenotype development, and being under the control of the moderately responding hub genes. To test our hypothesis, we applied our approach to migrating primary human keratinocytes under Hepatocyte Growth Factor stimulation as well as to transdifferentiating cells in the moss Physcomitrella Patens. Analysis of time-resolved microarray data revealed the predicted close link of strongly regulated genes with the phenotype, providing insight into the sequential orchestration of signaling pathways during the cellular decision process. When inhibiting strongly responding genes in the human keratinocytes, we found a  decrease in migratory activity proportional to the genes' response strength, in line with our initial hypothesis. To understand the action of moderately strong responding hub genes, which potentially initiate and control cellular decisions, we apply the idea of cell attractors in the search for genes that contribute to the coordinated, long-term change in gene expression. Applying this approach, we predicted and experimentally verified novel transcription factors, that regulate the development of apical stem cells in detached P. Patens leaflets, despite their weak temporal regulation on the transcriptomic level. Taken together, the cross-species application of systems theoretic ideas to transcriptome dynamics of 'deciding' cells  reveals both the global sequence of events and the individual key players crucially involved in the respective cellular responses, irrespective of the biological model under investigation.

FORSYS Workshop on Data Management for Systems Biology

March 5-7, 2011 at Heidelberg Golm

The workshop is supported by the Federal Ministry for Education and Research (BMBF) and aims at the discussion of current developments in the field of data management and to develop proposals for the establishment of new data management solutions. To ensure broad participation of all systems biology networks in Germany, please consider participating in the workshop and / or forwarding this invitation to colleagues who are active in the field of data management, be it as developer or user of existing solutions.

Focus Area Plant Genomics and Systems Biology
University of Potsdam

Workshop at the Charité, Friday, April 30, 2010 from 13.00 to 16.00 p.m., Institute of Microbiology a nd Hygiene, Charité at the� University Medicine Berlin, Historic Robert Koch Lecture Hall, Dorotheenstr. 96 in 10117 Berlin

Understanding the interactions of small molecules with proteins is a challenging task - and highly important in various aspects of life science, e.g. to assess side effects of drug candidates or to identify proteins within signaling pathways. caprotec provides innovative chemical biology solutions for the analysis of small molecule protein interactions. The novel Capture Compound Mass Spectrometry (CCMS) technology allows isolating proteins based on their functionality.This workshop will give you an overview of the various applications of this novel technology, for example to analyze methyltransferases, metalloproteases or kinases in different organisms and subproteomes.

The speakers will be: Dr. Thomas Vogt, Leibniz-Insitute for Plant Biochemistry (IPB) Halle - Prof. Dr. Elmar Weinhold, Institute for Organic Chemistry RWTH Aachen - Prof. Dr. Norbert Sewald, University of Bielefeld - Dr. Mathias Dreger, caprotec bioanalytics GmbH

Please see detailed information in the attached program guide. Refreshments will be provided during the session. Please register for free attendance at our webpage: http://www.caprotec.com/workshop

International Symposium "Regulation of Plant Growth - from Cells to Organs to Organisms", April 12 - 14, 2010
* Systems Biology and synthetic Biology in plants
* Plant growth and its regulation
* Analysis of functional genomics data / Bioinformatics

GoFORSYS-Seminar, March 26, 2010, Speakers were Henrike Brust (AG Steup): "Functional Aspects of the Interaction of Starch Synthase and Branching Isozymes" and Erim Solmaz (AG Nikoloski): "Functionality, bi-stability and regulatory principles of the Calvin cycle"

GoFORSYS Seminar, February 26, 2010: "Cell cycle and primary metabolism in different Chlamydomonas strains" by Michael Sandmann, Institute of Biochemistry and Biology / Plant Physiology, University of Potsdam,

GoFORSYS Seminar, January 29, 2010: Modeling the electron transport chain of photosynthetic bacteria and new theoretical approaches for metabolic engineering by Dr.-Ing. Steffen Klamt, Max Planck Institute for Dynamics of Complex Technical Systems, Magdeburg Centre for Systems Biology (MaCS)

Speech by Professor Dr. Dieter Strack from the IPB Halle will be at the Max Planck Institute of Molecular Plant Physiology on Thursday, 21st of January. He is an expert in plant secondary metabolism and will give a talk at 4:15 p.m.in the Seminar Room (Z-1.052/53), Central Building, Max Planck Campus, Golm.

If you are interested in speaking with Prof. Strack, Dr. Carsten Müssig will try to arrange a schedule (0331 - 567 84 45).
September 28-30, 2009 - German Conference on Bioinformatics, Martin Luther University Halle-Wittenberg www.gcb2009.de

GoFORSYS Seminar, 28.08.09, 4 pm, Seminar Room (Z-1.052/53), Central Building, Max Planck Campus, Golm
Mark Schöttler and Juliane Wolf from the MPI MP will talk about "Future perspectives for the GoFORSYS Core experiment – the adjustment of photosynthesis to long-term changes in light intensity"

September 16-19, 2009 - 6th Tri-National Arabidopsis Meeting, Max Planck Institut for plant breeding research, Cologne www.tnam.de

September 16-18, 2009 - 5th Workshop "Molecular Interactions - From Omics to Systems",
Institute of Physiology, Arnimallee 22, 14195 Berlin
Dr. Claudia Falter, GoFORSYS, University of Potsdam, Fon: +49 331 567 84 70

10th International Conference on Systems Biology, August 30 - September 4, 2009 in Stanford, California, USA
Tutorials: Aug 30 - 31, 2009
Conference: Aug 31 - Sept 3, 2009
Workshops: Sept 3 - 4, 2009

31.07.2009 GoFORSYS-Seminar

1) Quantitative mass spectrometry for monitoring proteome dynamics in Chlamydomonas, Michael Schroda, University of Potsdam / Max Planck Institute of Molecular Plant Physiology
2) What can we learn from the core experiment? Classical and network analysis of lipidomics data set, Zoran Nikoloski, University of Potsdam / Max Planck Institute of Molecular Plant Physiology

26.06. 2009 - GoFORSYS-Seminar

Functional genetic variation in photosynthesis and starch metabolism genes in Arabidopsis, Sandra Schwarte, Unit of Evolutionary Biology/Systematic Zoology - Prof. Dr. Ralph Tiedemann, Institute of Biochemistry and Biology, University of Potsdam

21.-25.06. 2009 - 11th International conference on molecular systems biology (IMSB 2009), Shanghai, China

05.06.2009 - GoFORSYS-Lecture

On the Design of Maximal Informative Experiments in Biology by Alberto Giovanni Busetto, ETH Zuerich, Department of Computer Science

26.06. 2009 - GoFORSYS-Mini-Symposium

“Systems Biology in Chlamydomonas - Development and Analysis of Dynamic Models” - GoFORSYS Mini-Symposium!

12.-15.05.2009 - German Symposium on Systems Biology 2009, Heidelberg Convention Center (Stadthalle)

24.04.2009 - GoFORSYS-Seminar

Lessons Learned from Deep Sequencing of Entire Transcriptomes, Stefan Haas, Group Leader at the Dept. of Computational Molecular Biology, Max Planck Institute for Molecular Genetics in Dahlem.

Automated Reasoning about Large-Scale Biological Networks: Consistency, Diagnosis, Repair, Prediction, and more, Torsten Schaub, GoFORSYS PI, from the Institute of Computer Science, UP, will talk about:

17.04.2009 - Lecture

Traffic Jumps in a Cell: Lost in Translation, M. Carmen Romano, School of Natural and Computing Sciences, University of Aberdeen, UK

27.03.2009 - GoFORSYS-Seminar

Constraint-based modeling of metabolic and regulatory networks, Prof. Dr. Alexander Bockmayr, DFG-Research Center Matheon, FU Berlin

21.11.2008 - Workshop

"Metabolic Networks Dynamics, Evolution, and Topology"

15. - 18.11.2008 - 4th EMBO Conference

"Functional Genomics to Systems Biology“ EMBL Heidelberg, Germany (Deadline registration, abstract submission: 03.08.08, http://www.embl.de/Conferences/Omics/2008)

GoFORSYS was chosen as "Ort der Ideen" 2009