Cell signalling networks, literature
The following is a list of papers I'm researching. The list is mainly used for my own administration, but you can have a look at the stuff I'm currently looking into.
Papers of which we have a copy
\article{Dittrich2001,
author = {Dittrich, P. and Ziegler, J. and Banzhaf, W.},
title = {Artificial Chemistries--A Review},
journal = {Artificial Life},
year = {2001},
volume = {7},
pages = {225--275}
}
\article{Ebenhoh2001,
author = {Ebenhoh, O. and Heinrich, R.},
title = {Evolutionary Optimization of Metabolic Pathways. Theoretical Reconstruction of the Stoichiometry of ATP and NADH Producing Systems},
journal = {Bull. Math. Biol.},
year = {2001},
volume = {63},
pages = {21-55}
}
\article{Heinrich1999,
author = {Heinrich, R. and Mel\'endez-Hevia, E. and Montero, F. and Nu\~no, J. C. and
Stephani, A. and Waddell, T. G.},
title = {The Structural Design of Glycolysis; An Evolutionary Approach},
journal = {Biochem. Soc. Trans.},
year = {1999},
volume = {27},
pages = {294--298}
}
\article{MelendezHevia1990,
author = {Mel\'endez-Hevia, E.},
title = {The Game of the Pentose Phosphate Cycle: A Mathematical Approach to Study the
Optimization in Design of Metabolic Pathways During Evolution},
journal = {Biomed. Biochim. Acta},
year = {1990},
volume = {49},
pages = {903--916}
}
\article{MelendezHevia1994,
author = {Mel\'endez-Hevia, E. and Waddell, T. G. and Montero, F.},
title = {Optimization of Metabolism: The Evoluytion of Metabolic Pathways toward Simplicity
through the Game of the Pentose Phosphate Cycle},
journal = {J. theor. Biol.},
year = {1994},
volume = {166},
pages = {201--220}
}
\article{MelendezHevia1996,
author = {Mel\'endez-Hevia, E. and Waddell, T. G. and Cascante, M.},
title = {The Puzzle of the Krebs Citric Acid Cycle: Assembling the Pieces of Chemically
Feasible Reactions, and Opportunism in the Design of Metabolic Pathways during Evolution},
journal = {J. mol. Evol.},
year = {1996},
volume = {43},
pages = {293--303}
}
\article{MelendezHevia1997,
author = {Mel\'endez-Hevia, E. and Waddell, T. G. and Heinrich, R. and Montero, F.},
title = {Theoretical Approaches to the Evolutionary Optimization of Glycolysis. Chemical Analysis},
journal = {Eur. J. Biochem.},
year = {1997},
volume = {244},
pages = {527--543}
}
\article{Mittenthal2001
author = {Mittenthal, Jay E. and Clarke, Bertrand and Waddell, Thomas G. and Fawcett, Glenn},
title = {A New Method for Assembling Metabolic Networks, with Application to the Krebs Citric
Acid Cycle},
journal = {J. theor. Biol.},
year = {2001},
volume = {208},
pages = {361--382}
}
\proceedings{Mittenthal1996,
author = {Mittenthal, J. E.},
title = {An Algorithm to Assemble Pathways from Processes},
book = {Pacific Symposium on Biocomputing '97},
editor = {Altman, R. B. and Dunker, A. K. and Hunter, L. and Klein, T.E.},
year = {1996},
pages = {292--303},
publisher = {World Scientific}
}
\article{Mittenthal1998,
author = {Mittenthal, J. E. and Tuan, A. and Clarke, B. and Scheeline, A.},
title = {Designing Metabolism: Alternative Connectivities for The Pentose Phosphate Pathway},
journal = {Bull. Math. Biol.},
year = {1998},
volume = {60},
pages = {815--856}
}
\article{Morowitz1999,
author = {Morowitz, H.},
title = {A Theory of Biochemical Organization, Metabolic Pathways, and Evolution},
journal = {Complexity},
year = {1999},
volume = {4},
pages = {39--53}
}
\article{Ziegler2001,
author = {Ziegler, J. and Banzhaf, W.},
title = {Evolving Control Metabolisms for a Robot},
journal = {Artificial Life},
year = {2001},
volume = {7},
pages = {171-190}
}
Papers that have been ordered from the library
\article{Baldwin1981,
author = {Baldwin, J. E. and Krebs, H.},
title = {The Evolution of Metabolic Cycles},
journal = {Nature},
year = {1981},
volume = {291},
pages = {381--382}
}
\article{Bray1995,
author = {Bray, D.},
title = {Protein Molecules as Computational Elements in Living Cells},
journal = {Nature},
year = {1995},
volume = {376},
pages = {307--313}
}
\article{Mavrovouniotis1990,
author = {Mavrovouniotis, M. L. and Stephanopoulos, G.},
title = {Computer-Aided Synthesis of Biochemical Pathways},
journal = {Biotechnol. Bioeng.},
year = {1990},
volume = {36},
pages = {1119-1132}
}
Papers that need to be searched for, and ordered if necessary
bibtex template for my convenience
\article{,
author = {},
title = {},
journal = {},
year = {},
volume = {},
pages = {}
}