evolutionary game theory presentation
- 1. Metabolic Network and MitochondrialMetabolic Network and Mitochondrial EvolutionEvolution
- 2. MotivationMotivation An important goal in biology is to uncover the fundamental design principles that provide the common underlying structure and function in all cells and microorganisms. The development of huge databases have improved our ability to identify the design principles that integrate these interactions into a complex system.
- 3. The concept of modularity assumes that cellular functionality can be seamlessly partitioned into a collection of modules. Each module is a discrete entity of several elementary components and performs an identifiable task, separable from the functions of other modules . Spatially and chemically isolated molecular machines or protein complexes (such as ribosomes and flagella) are prominent examples of such functional units, but more extended modules, such as those achieving their isolation through the initial binding of a signaling molecule, are also apparent.
- 4. The endosymbiont theory explains the origins of organelles such as mitochondria and chloroplasts in eukaryotic cells. The theory proposes that chloroplasts and mitochondria evolved from certain types of bacteria that prokaryotic cells engulfed through endophagocytosis. These cells and the bacteria trapped inside then entered a symbiotic relationship, a close cooperation between different types of organisms over an extended time.
- 5. Researchers in molecular and evolutionary biology no longer question this theory, as it has numerous proofs from cellular and genetic point of view. But the mechanisms are still being worked out. In this program, I want to take a global picture of the topological structure of metabolic networks and modularity hoping that it may give some hint to the design principle of this process.
- 6. E. Ravasz et al., Science 297, 1551 -1555 (2002)
- 7. TTools and Databasesools and Databases Pajek Kegg Yeast mitochondria reactions http://gcrg.ucsd.edu/what.htm
- 11. sub open_file given the filename, return the filehandle sub get_next_record given the filehandle, get the record (we can get the offset by first calling "tell") sub get_reaction_and_enzyme for each reaction number, get the coresponding reaction formula and enzymes sub parse_reaction separate each reaction formula into @reactants and @products sub delete_compounds delete the universal compounds
- 13. Correlate the enzymes by the compound relationships Use Simulated Annealing to analyze the modular structure of the networks Compare the modular structure of mitochondria and other species And more… Unfinished Work
- 14. Next is the PPT of my presentation which is mainly my digest of Matin Nowak’s book Evolutionary Dynamics. This presentation was given two weeks ago in the course of System Theory conducted by Prof.Andreas Dress at Partner Institute of Computer Biology, Chinese Academy of Life Science.
- 54. Nash equilibrium
- 56. Lotka Volterra equation of ecology
- 64. Evolutionary Dynamics Evolutionary Dynamics of Biological Games VirtualLabs in evolutionary game theory